Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 68 of 214
Found at i:19395892 original size:16 final size:16
Alignment explanation
Indices: 19395871--19395927 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
19395861 TTAAATAATT
*
19395871 TAAAAATTATAAAACA
1 TAAAAATTATAAAAAA
19395887 TAAAAATTATATAAAAAA
1 TAAAAA-T-TATAAAAAA
**
19395905 TAAAAACAATAAAAAA
1 TAAAAATTATAAAAAA
19395921 TAAAAAT
1 TAAAAAT
19395928 AATTTTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 20 0.57
17 1 0.03
18 14 0.40
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAATTATAAAAAA
Found at i:19395893 original size:27 final size:27
Alignment explanation
Indices: 19395863--19395919 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
19395853 TAAAAATTTT
* *
19395863 AAATAATTTAAAAATTATAAAAC-ATAA
1 AAATAATATAAAAAATA-AAAACAATAA
*
19395890 AAATTATATAAAAAATAAAAACAATAA
1 AAATAATATAAAAAATAAAAACAATAA
19395917 AAA
1 AAA
19395920 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (27 bp):
AAATAATATAAAAAATAAAAACAATAA
Found at i:19396241 original size:17 final size:19
Alignment explanation
Indices: 19396221--19396261 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
19396211 TTTTAATAGT
19396221 TTTTAATAATT-TTTAT-A
1 TTTTAATAATTATTTATAA
19396238 TTTT-A-AATTATTTATAA
1 TTTTAATAATTATTTATAA
19396255 TTTTAAT
1 TTTTAAT
19396262 GTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 9 0.45
18 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATAATTATTTATAA
Found at i:19397664 original size:24 final size:24
Alignment explanation
Indices: 19397633--19397698 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
19397623 ATCTAAAATA
*
19397633 ATAATATATGATAAGTTTCAAACT
1 ATAATATATGATAAATTTCAAACT
* * *
19397657 ATAGTATATAATAAATTTCAAGCT
1 ATAATATATGATAAATTTCAAACT
*
19397681 ATAATGTATGATAAATTT
1 ATAATATATGATAAATTT
19397699 AAATAATACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (24 bp):
ATAATATATGATAAATTTCAAACT
Found at i:19399646 original size:44 final size:44
Alignment explanation
Indices: 19399362--19399690 Score: 158
Period size: 44 Copynumber: 7.5 Consensus size: 44
19399352 ATCTACTACT
* * ** * *
19399362 CTGCAACTTCAGAGAGATAAGATCTATC-ATTTCGATCTGCTATA
1 CTGCAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCTA
* * *
19399406 CTGCAACTTCAGGGAGATAGGATT-T-GAGGTTCTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAGGATTATCG-GCTTC-AATCTGCTCTA
* * ** *** * *
19399450 CTGTAACTTCAGGGAGATAGGATTGGT-TTCTTGTGTCTGTTCCA
1 CTGCAACTTCAGGGAGATAGGATT-ATCGGCTTCAATCTGCTCTA
* * *
19399494 CTGCAACCTT-AGGGAGACA--A-GA-CGGGTTGCAATCTGCTCTA
1 CTGCAA-CTTCAGGGAGATAGGATTATCGGCTT-CAATCTGCTCTA
* * * * * * * * *
19399535 CTACAACTTCAGAGAGATAAGATCTGT-AGTTTTAATCAGTTCCT-
1 CTGCAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCT-CTA
* * * *
19399579 TTGCAATTTCAAGGAGGTAGGATTATCGGCTTCAATCTGCTCTA
1 CTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCTA
** *
19399623 CTGCAACTTCAGGGAGATAGGATTATCAACTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCTA
* *
19399667 CTGCAACCTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAGGATT
19399691 TGCCATCTTT
Statistics
Matches: 207, Mismatches: 61, Indels: 34
0.69 0.20 0.11
Matches are distributed among these distances:
40 5 0.02
41 19 0.09
42 2 0.01
43 9 0.04
44 161 0.78
45 10 0.05
46 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCTA
Found at i:19399724 original size:45 final size:44
Alignment explanation
Indices: 19399613--19399777 Score: 147
Period size: 44 Copynumber: 3.7 Consensus size: 44
19399603 ATCGGCTTCA
** * *
19399613 ATCTGCTCTACTGCAACTTCAGGGAGATAGGATTAT-CAACTTCA-
1 ATCTGCTCCGCTGCAACTTCAGGGAGATAAGATT-TGCATCTT-AG
* * *
19399657 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTTG
1 ATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTG-CATCTTAG
* * * ** * *
19399702 ATTTGCCCCGCTGCAACTTCAGGGGGATAAGACCTGCTTACTCAG
1 ATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCAT-CTTAG
19399747 -TCTGCTCCGCTGCAACTTCAGGGAGATAAGA
1 ATCTGCTCCGCTGCAACTTCAGGGAGATAAGA
19399778 CCTGATGTGA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
43 1 0.01
44 61 0.62
45 37 0.37
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCATCTTAG
Found at i:19400254 original size:129 final size:129
Alignment explanation
Indices: 19399986--19401006 Score: 1667
Period size: 129 Copynumber: 7.9 Consensus size: 129
19399976 GACCAGGAAT
*
19399986 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATTTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400051 AGACAAGATCTGT-ATTTCCCAACCTATTCTACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * * * *
19400114 AATCTACTTCCTCACACTTGAAGATAAGATTCGTCGTCCTCGATCTGCTCCGTTATTGCTTAGAG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400179 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGTTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
19400243 AATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400308 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
19400371 AATCTGCTT-CTTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCTTAGG
1 AATCTGCTTCCTT-ACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGG
* * *
19400435 GAGATAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGTTTA
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
19400500 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400565 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGG-CTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATAT-AGGACTTGTGGCTTA
* * * *
19400628 AATCTGCTTCCTGACACTTGAAGATAGGATTCGCCGTCCTCGATCTGC-CCTGTTATTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCC-GCTATTGCTTAGG
* * * *
19400692 GAGACAAGATCTATAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGCGGTTTA
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
19400757 AATCTTCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19400822 AGACAAGATTTGTAATTTCCCAACCTATTCCACTGCTGACCCGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
19400886 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * *
19400951 AGACAAGATCTGTAATTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
19401007 ACAATCTTCA
Statistics
Matches: 823, Mismatches: 61, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
127 5 0.01
128 303 0.37
129 510 0.62
130 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (129 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
Found at i:19400449 original size:257 final size:257
Alignment explanation
Indices: 19399986--19401006 Score: 1731
Period size: 257 Copynumber: 4.0 Consensus size: 257
19399976 GACCAGGAAT
* *
19399986 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATTTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400051 AGACAAGATCTGTATTTCCCAACCTATTCTACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
66 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
* * * * *
19400116 TCTACTTCCTCACACTTGAAGATAAGATTCGTCGTCCTCGATCTGCTCCGTTATTGCTTAGAGAG
131 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
*
19400181 ACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGTTTA
196 ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
* * *
19400243 AATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400308 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTAAA
66 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
* *
19400373 TCTGCTTCTTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCTTAGGGAG
131 TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
* * *
19400438 ATAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGTTTA
196 ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
19400500 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400565 AGACAAGATCTGTATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGG-CTTGTGGCTTAA
66 AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATAT-AGGACTTGTGGCTTAA
* *
19400629 ATCTGCTTCCTGACACTTGAAGATAGGATTCGCCGTCCTCGATCTGC-CCTGTTATTGCTTAGGG
130 ATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCC-GCTATTGCTTAGGG
* *
19400693 AGACAAGATCTATAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGCGGTTTA
194 AGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
*
19400757 AATCTTCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19400822 AGACAAGATTTGTAATTTCCCAACCTATTCCACTGCTGACCCGGGATATAGGACTTGTGGCTTAA
66 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
* *
19400887 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
130 ATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGA
* *
19400952 GACAAGATCTGTAATTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
195 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTT
19401007 ACAATCTTCA
Statistics
Matches: 720, Mismatches: 39, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
256 1 0.00
257 560 0.78
258 157 0.22
259 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (257 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAA
TCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCCGCTATTGCTTAGGGAG
ACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGTTTA
Found at i:19400776 original size:386 final size:387
Alignment explanation
Indices: 19399986--19401006 Score: 1669
Period size: 386 Copynumber: 2.6 Consensus size: 387
19399976 GACCAGGAAT
*
19399986 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATTTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
19400051 AGACAAGATCTGT-ATTTCCCAACCTATTCTACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
* * * * * *
19400115 ATCTACTTCCTCACACTTGAAGATAAGATTCGTCGTCCTCGATCTGCTCCGTTATTGCTTAGAGA
131 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
* *
19400180 GACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATAT-AGGACTTGTGGTTTAA
196 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGGACTTGTGGCTTAA
* * *
19400244 ATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTATTGCTTAGGGA
261 ATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCAATCTGCTCCGCTATTGCTTAGGGA
* * * *
19400309 GACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATATGACTTGTGGCTTA
326 GACAAGATCTATATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGCGGCTTA
* *
19400371 AATCTGCTT-CTTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCTTAGG
1 AATCTGCTTCCTT-ACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGG
* * *
19400435 GAGATAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGTTTA
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
19400500 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
130 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
19400565 AGACAAGATCTGT-ATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGG-CTTGTGGCTTA
195 AGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGGACTTGTGGCTTA
* * *
19400628 AATCTGCTTCCTGACACTTGAAGATAGGATTCGCCGTCCTCGATCTGC-CCTGTTATTGCTTAGG
260 AATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCAATCTGCTCC-GCTATTGCTTAGG
*
19400692 GAGACAAGATCTATAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGCGGTTTA
324 GAGACAAGATCTAT-ATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGCGGCTTA
* *
19400757 AATCTTCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
19400822 AGACAAGATTTGTAATTTCCCAACCTATTCCACTGCTGACCCGGGATATAGGACTTGTGGCTTAA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
19400887 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
131 ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
* *
19400952 GACAAGATCTGTAATTTCCCAATCTATTCCACTACTGACTAGGGATAT-AGGACTT
196 GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGGACTT
19401007 ACAATCTTCA
Statistics
Matches: 589, Mismatches: 39, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
384 5 0.01
385 182 0.31
386 363 0.62
387 39 0.07
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (387 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAA
ATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGA
GACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAAGGACTTGTGGCTTAA
ATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCAATCTGCTCCGCTATTGCTTAGGGA
GACAAGATCTATATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGCGGCTTA
Found at i:19403210 original size:6 final size:6
Alignment explanation
Indices: 19403199--19403290 Score: 82
Period size: 6 Copynumber: 15.7 Consensus size: 6
19403189 CTTCTCTCTT
* * * *
19403199 TTTTCA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* * * *
19403245 TCTT-C TTTTTA TTTTTA TTTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTT
19403291 TTTTTAATTG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
4 3 0.04
5 3 0.04
6 65 0.86
7 5 0.07
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:19407876 original size:24 final size:24
Alignment explanation
Indices: 19407845--19407910 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
19407835 ATCTAAAATA
*
19407845 ATAATATATGATAAGTTTCAAACT
1 ATAATATATGATAAATTTCAAACT
* * *
19407869 ATAGTATATAATAAATTTCAAGCT
1 ATAATATATGATAAATTTCAAACT
*
19407893 ATAATGTATGATAAATTT
1 ATAATATATGATAAATTT
19407911 AAATAATACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (24 bp):
ATAATATATGATAAATTTCAAACT
Found at i:19409551 original size:45 final size:44
Alignment explanation
Indices: 19409497--19409583 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
19409487 GGTTCGCTGT
*
19409497 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
* *
19409542 AATGTAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAAT
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAAT
19409584 TGAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.03
44 18 0.49
45 18 0.49
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:19409808 original size:22 final size:23
Alignment explanation
Indices: 19409766--19409808 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19409756 AAATTAAAAA
19409766 TATAAAAAAGTGTATGTATATAT
1 TATAAAAAAGTGTATGTATATAT
* *
19409789 TATAGAAAA-TGTGTGTATAT
1 TATAAAAAAGTGTATGTATAT
19409809 TTTGAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (23 bp):
TATAAAAAAGTGTATGTATATAT
Found at i:19411607 original size:45 final size:45
Alignment explanation
Indices: 19411550--19411974 Score: 503
Period size: 45 Copynumber: 9.4 Consensus size: 45
19411540 ATAAGACTTG
* * * *
19411550 TATCTTCAATCCACTTCGCTGCCAGTACAGGAAGATAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
19411595 TATCTTCGATCCACTTTGCTGCCAATACAAGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * * *
19411640 TATC-TCTGATCTAGTTCACTGCCAGTATAGGAAGATAAGATCTGC
1 TATCTTC-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
19411685 TATCTTCGATCCACTTTGCTGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * * **
19411730 TATC-TCTAATCTACTTCGCTGCTAGTATAGGAAGACAAGATCTAT
1 TATCTTC-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
19411775 TATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
19411820 TATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
19411865 TATCTTCGATCTATTTCGCTACCAATATAGAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
19411910 TATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
*
19411955 TATCTTTGATCTACTTCGCT
1 TATCTTCGATCTACTTCGCT
19411975 ACCTATCTTT
Statistics
Matches: 318, Mismatches: 58, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
44 4 0.01
45 310 0.97
46 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
Found at i:19411793 original size:135 final size:135
Alignment explanation
Indices: 19411550--19412381 Score: 566
Period size: 135 Copynumber: 6.0 Consensus size: 135
19411540 ATAAGACTTG
* * * * *
19411550 TATCTTCAATCCACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTCGATCCACTTTGCT
1 TATCTTCGATCCACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCT
* * * * *
19411615 GCCAATACAAGAAGACAAGATCTGCTATC-TCTGATCTAGTTCACTGCCAGTATAGGAAGATAAG
66 GCCAATATAGGAAGACAAGATCTGCTATCTTC-GATCTACTTCACTGCCAATATAGGAAGACAAG
19411679 ATCTGC
130 ATCTGC
* * *
19411685 TATCTTCGATCCACTTTGCTGCCAATACATGAAGACAAGATCTGCTATC-TCTAATCTACTTCGC
1 TATCTTCGATCCACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC-GATCTACTTCGC
* * ** *
19411749 TGCTAGTATAGGAAGACAAGATCTATTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
65 TGCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATATAGGAAGACAAG
19411814 ATCTGC
130 ATCTGC
* * * * *
19411820 TATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTATTTCGCT
1 TATCTTCGATCCACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCT
* * * * * *
19411885 ACCAATATAGAAAGACAAGATCTGCTATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGA
66 GCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGA
*
19411950 TCTGT
131 TCTGC
* * * * ** * * ** * **
19411955 TATCTTTGATCTACTTCGCTACCTAT-CTTTG-A-TCTACTTCGCTGTCAATACAGAAAAACAAG
1 TATCTTCGATCCACTTCGCTGCCAATAC-AGGAAGACAAGAT--CTG-CTAT-C-----TTC--G
* * * * ** * * ** * **
19412017 ATCTGTTATCTTCGAT-CTACT-TCGCTA-CCAATATAGGAAGACAAGATCTGCTATTTTTAATC
54 ATC---TA-CTTCGCTGCCAATATAGGAAGACAAGAT---CTG-C--TATCT-------TCGATC
* * * * *
19412079 TATTTCGCTGCCAGTACAGGAAGACAAGATCTGT
102 TACTTCACTGCCAATATAGGAAGACAAGATCTGC
* * * * * *
19412113 TATCTTCGATCTACTTCGCTACCAATATAGAAAGACAAGATCTGCTATATTTGATCTACTTCGCT
1 TATCTTCGATCCACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCT
* * * * * *
19412178 GTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGATGACAAGA
66 GCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGA
19412243 TCTGC
131 TCTGC
* * * * *
19412248 TATTTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCT
1 TATCTTCGATCCACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCT
* * ** *
19412313 -CTCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTTTCAATACAGGAAGACAAG
66 GC-CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATATAGGAAGACAAG
19412377 ATCTG
130 ATCTG
19412382 TTGTTTTCAA
Statistics
Matches: 537, Mismatches: 121, Indels: 78
0.73 0.16 0.11
Matches are distributed among these distances:
133 3 0.01
134 4 0.01
135 398 0.74
136 6 0.01
137 1 0.00
142 5 0.01
144 4 0.01
145 12 0.02
146 7 0.01
147 7 0.01
148 11 0.02
149 5 0.01
151 3 0.01
157 3 0.01
158 64 0.12
159 1 0.00
160 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (135 bp):
TATCTTCGATCCACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCT
GCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGA
TCTGC
Found at i:19412023 original size:68 final size:68
Alignment explanation
Indices: 19411909--19412045 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
19411899 ACAAGATCTG
* * * *
19411909 CTATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGCCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
19411974 TAC
66 TAC
*
19411977 CTATCTTTGATCTACTTCGCTGTCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGCCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
19412042 TAC
66 TAC
19412045 C
1 C
19412046 AATATAGGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (68 bp):
CTATCTTTGATCTACTTCGCTGCCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
TAC
Found at i:19412041 original size:158 final size:158
Alignment explanation
Indices: 19411819--19412135 Score: 535
Period size: 158 Copynumber: 2.0 Consensus size: 158
19411809 ACAAGATCTG
* * * *
19411819 CTATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTATTTCGC
1 CTATCTTTGATCTACTTCGCTGCCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
*
19411884 TACCAATATAGAAAGACAAGATCTGCTATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAG
66 TACCAATATAGAAAGACAAGATCTGCTATGTTTAATCTACTTCGCTGCCAATACAGGAAGACAAG
*
19411949 ATCTGTTATCTTTGATCTACTTCGCTAC
131 ATCTGTTATCTTCGATCTACTTCGCTAC
*
19411977 CTATCTTTGATCTACTTCGCTGTCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGCCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
* * * *
19412042 TACCAATATAGGAAGACAAGATCTGCTATTTTTAATCTATTTCGCTGCCAGTACAGGAAGACAAG
66 TACCAATATAGAAAGACAAGATCTGCTATGTTTAATCTACTTCGCTGCCAATACAGGAAGACAAG
19412107 ATCTGTTATCTTCGATCTACTTCGCTAC
131 ATCTGTTATCTTCGATCTACTTCGCTAC
19412135 C
1 C
19412136 AATATAGAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 148 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (158 bp):
CTATCTTTGATCTACTTCGCTGCCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
TACCAATATAGAAAGACAAGATCTGCTATGTTTAATCTACTTCGCTGCCAATACAGGAAGACAAG
ATCTGTTATCTTCGATCTACTTCGCTAC
Found at i:19412042 original size:45 final size:45
Alignment explanation
Indices: 19411978--19412383 Score: 526
Period size: 45 Copynumber: 9.0 Consensus size: 45
19411968 CTTCGCTACC
* * *
19411978 TATCTTTGATCTACTTCGCTGTCAATACAGAAAAACAAGATCTGT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* * * *
19412023 TATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* * * *
19412068 TATTTTTAATCTATTTCGCTGCCAGTACAGGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* * * * *
19412113 TATCTTCGATCTACTTCGCTACCAATATAGAAAGACAAGATCTGC
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* *
19412158 TATATTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* * * * *
19412203 TATCTTCGATCTACTTCGCTACCAATATAGGATGACAAGATCTGC
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* *
19412248 TATTTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
* * *
19412293 TATCTTCGATCTACTTCGCT-CTCAATATAGGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCGCTGC-CAATACAGGAAGACAAGATCTGT
**
19412338 TATCTTTGATCTACTTCGCTTTCAATACAGGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
19412383 T
1 T
19412384 GTTTTCAACC
Statistics
Matches: 305, Mismatches: 54, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
44 1 0.00
45 304 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (45 bp):
TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGT
Found at i:19412063 original size:113 final size:113
Alignment explanation
Indices: 19411865--19412087 Score: 311
Period size: 113 Copynumber: 2.0 Consensus size: 113
19411855 CAAGATCTGT
* * * * *
19411865 TATCTTCGATCTATTTCGCTACCAATATAGAAAGACAAGATCTGCTATGTTTGATCTACTTCGCT
1 TATCTTCGATCTACTTCGCTACCAATACAGAAAAACAAGATCTGCTATCTTCGATCTACTTCGCT
* * *
19411930 GCCAATACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCTACC
66 ACCAATACAGGAAGACAAGATCTGCTATCTTTAATCTACTTCGCTACC
* ** *
19411978 TATCTTTGATCTACTTCGCTGTCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGCT
1 TATCTTCGATCTACTTCGCTACCAATACAGAAAAACAAGATCTGCTATCTTCGATCTACTTCGCT
* * *
19412043 ACCAATATAGGAAGACAAGATCTGCTATTTTTAATCTATTTCGCT
66 ACCAATACAGGAAGACAAGATCTGCTATCTTTAATCTACTTCGCT
19412088 GCCAGTACAG
Statistics
Matches: 95, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 95 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (113 bp):
TATCTTCGATCTACTTCGCTACCAATACAGAAAAACAAGATCTGCTATCTTCGATCTACTTCGCT
ACCAATACAGGAAGACAAGATCTGCTATCTTTAATCTACTTCGCTACC
Found at i:19412131 original size:203 final size:203
Alignment explanation
Indices: 19411775--19412177 Score: 554
Period size: 203 Copynumber: 2.0 Consensus size: 203
19411765 CAAGATCTAT
* * * * *
19411775 TATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATGTTTGATCTACTTCGCT
1 TATCTTCGATCTACTTCACTACCAATACAGAAAAACAAGATCTGCTATCTTCGATCTACTTCGCT
* * * *
19411840 GCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTATTTCGCTACCAATATAGAAAGACAAGA
66 ACCAATACAGGAAGACAAGATCTGCTATCTTCAATCTATTTCGCTACCAATACAGAAAGACAAGA
* * * * * *
19411905 TCTGCTATGTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTGATCTACT
131 TCTGCTATCTTCGATCTACTTCGCTACCAATACAGAAAGACAAGATCTGCTATATTTGATCTACT
19411970 TCGCTACC
196 TCGCTACC
* * ** *
19411978 TATCTTTGATCTACTTCGCTGTCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGCT
1 TATCTTCGATCTACTTCACTACCAATACAGAAAAACAAGATCTGCTATCTTCGATCTACTTCGCT
* * * * * *
19412043 ACCAATATAGGAAGACAAGATCTGCTATTTTTAATCTATTTCGCTGCCAGTACAGGAAGACAAGA
66 ACCAATACAGGAAGACAAGATCTGCTATCTTCAATCTATTTCGCTACCAATACAGAAAGACAAGA
* *
19412108 TCTGTTATCTTCGATCTACTTCGCTACCAATATAGAAAGACAAGATCTGCTATATTTGATCTACT
131 TCTGCTATCTTCGATCTACTTCGCTACCAATACAGAAAGACAAGATCTGCTATATTTGATCTACT
19412173 TCGCT
196 TCGCT
19412178 GTCAATACAG
Statistics
Matches: 172, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
203 172 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (203 bp):
TATCTTCGATCTACTTCACTACCAATACAGAAAAACAAGATCTGCTATCTTCGATCTACTTCGCT
ACCAATACAGGAAGACAAGATCTGCTATCTTCAATCTATTTCGCTACCAATACAGAAAGACAAGA
TCTGCTATCTTCGATCTACTTCGCTACCAATACAGAAAGACAAGATCTGCTATATTTGATCTACT
TCGCTACC
Found at i:19412139 original size:90 final size:90
Alignment explanation
Indices: 19411977--19412383 Score: 672
Period size: 90 Copynumber: 4.5 Consensus size: 90
19411967 ACTTCGCTAC
* *
19411977 CTATCTTTGATCTACTTCGCTGTCAATACAGAAAAACAAGATCTGTTATCTTCGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
19412042 TACCAATATAGGAAGACAAGATCTG
66 TACCAATATAGGAAGACAAGATCTG
* * * * *
19412067 CTATTTTTAATCTATTTCGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
*
19412132 TACCAATATAGAAAGACAAGATCTG
66 TACCAATATAGGAAGACAAGATCTG
*
19412157 CTATATTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
*
19412222 TACCAATATAGGATGACAAGATCTG
66 TACCAATATAGGAAGACAAGATCTG
* * *
19412247 CTATTTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
1 CTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
19412312 T-CTCAATATAGGAAGACAAGATCTG
66 TAC-CAATATAGGAAGACAAGATCTG
*
19412337 CTATCTTTGATCTACTTCGCTTTCAATACAGGAAGACAAGATCTGTT
1 CTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTT
19412384 GTTTTCAACC
Statistics
Matches: 293, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
89 1 0.00
90 292 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (90 bp):
CTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGC
TACCAATATAGGAAGACAAGATCTG
Found at i:19413797 original size:12 final size:12
Alignment explanation
Indices: 19413780--19413804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19413770 TGGAAAATCT
19413780 TTACCATCCATC
1 TTACCATCCATC
19413792 TTACCATCCATC
1 TTACCATCCATC
19413804 T
1 T
19413805 CACTCAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (12 bp):
TTACCATCCATC
Found at i:19414525 original size:18 final size:18
Alignment explanation
Indices: 19414499--19414541 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19414489 TGTTTTGGCA
*
19414499 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
19414517 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
19414535 GAAAGAA
1 GAAAGAA
19414542 CATTTGCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:19416518 original size:14 final size:14
Alignment explanation
Indices: 19416499--19416525 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19416489 TGGTTCAATT
19416499 CTTTACTAGAAAAA
1 CTTTACTAGAAAAA
19416513 CTTTACTAGAAAA
1 CTTTACTAGAAAA
19416526 CAAATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
CTTTACTAGAAAAA
Found at i:19420089 original size:59 final size:60
Alignment explanation
Indices: 19419934--19420090 Score: 151
Period size: 59 Copynumber: 2.6 Consensus size: 60
19419924 GGCCTGTTAG
* *
19419934 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAA-TCATAATATTAAATATTATTATAT
* * * ** * * * *
19419995 GAATTTACTAAAATCATAATAAATAATACT-ATAAAAT-ATAAT-TTAAAATAATTATTAT-T
1 AAATATAATTTAATAAAAATATATAAT-TTAATAAAATCATAATATT-AAAT-ATTATTATAT
19420054 AAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAAT
19420091 TCAATATAAT
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
58 3 0.04
59 35 0.49
60 8 0.11
61 25 0.35
62 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (60 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATCATAATATTAAATATTATTATAT
Found at i:19420091 original size:10 final size:10
Alignment explanation
Indices: 19420029--19420101 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
19420019 AATACTATAA
19420029 AATATAATTT
1 AATATAATTT
*
19420039 AAAATAA-TT
1 AATATAATTT
*
19420048 -AT-T-ATTA
1 AATATAATTT
19420055 AATATAATTT
1 AATATAATTT
**
19420065 AATA-AAAAT
1 AATATAATTT
19420074 -ATATAATTT
1 AATATAATTT
* *
19420083 AATAAAATTC
1 AATATAATTT
19420093 AATATAATT
1 AATATAATT
19420102 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:19420143 original size:117 final size:118
Alignment explanation
Indices: 19419934--19420152 Score: 388
Period size: 117 Copynumber: 1.9 Consensus size: 118
19419924 GGCCTGTTAG
19419934 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TAATATTAAATATTCTTATATGAAT
19419999 TTACTAAAATCATAATAAATAATACTATAAAATATAATTTAAAATAATTATTATT
65 TTACTAAAATCATAATAAATAATACTATAAAA-ATAATTTAAAATAATTATTATT
*
19420054 AAATATAATTTAATAAAAATATATAATTTAATAAAATTC-AATA-TAATTATTCTTATATGAATT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTAAATATTCTTATATGAATT
*
19420117 TACTAAAATCATAATATATAATACTATAAAAATAAT
66 TACTAAAATCATAATAAATAATACTATAAAAATAAT
19420153 ATATAATCTA
Statistics
Matches: 97, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
116 5 0.05
117 49 0.51
118 4 0.04
120 39 0.40
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (118 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTAAATATTCTTATATGAATT
TACTAAAATCATAATAAATAATACTATAAAAATAATTTAAAATAATTATTATT
Found at i:19421618 original size:49 final size:49
Alignment explanation
Indices: 19421544--19421647 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
19421534 GAAAAAAAAT
* * *
19421544 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
*
19421593 AAATTAAAATTAAGTTCAATTTCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
19421642 AAATTA
1 AAATTA
19421648 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.33
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:19424030 original size:17 final size:16
Alignment explanation
Indices: 19423998--19424028 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19423988 TAAATTGGAA
19423998 TATTAAAAATAAAAAT
1 TATTAAAAATAAAAAT
19424014 TATTAAAAATAAAAA
1 TATTAAAAATAAAAA
19424029 ATATAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAAATAAAAAT
Found at i:19425708 original size:78 final size:78
Alignment explanation
Indices: 19425555--19425709 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 78
19425545 ATCAGCCAAT
* *
19425555 GGGTTAACAAGGAGTGAATTTGCAATTATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
1 GGGTTAACAAGGACTGAATTTGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
* **
19425620 GCAATGACACTCA
66 ACAACAACACTCA
** * * * * *
19425633 GGGTTAATGAGGACTGAATTTGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAAG
1 GGGTTAACAAGGACTGAATTTGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
*
19425698 ACAGCAACACTC
66 ACAACAACACTC
19425710 GAAACTTGCA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (78 bp):
GGGTTAACAAGGACTGAATTTGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
ACAACAACACTCA
Found at i:19437192 original size:132 final size:129
Alignment explanation
Indices: 19437024--19438257 Score: 1297
Period size: 132 Copynumber: 9.4 Consensus size: 129
19437014 ATTTGTCATT
* * * * *
19437024 TTCGATCTGCTCCATTACTACTTAGGGAGATAAGATC-AAT-TTCTATGGTCTGCTCCGCTGCAA
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTAATCTTC-A--ATCTACTCCACTGC-A
* * * * ** *
19437087 CCTCGGGGAGATAAAATTACAGGCTTCCATGTACTCCACTGTAATCACAATGAGGTAAAATCCAT
62 CC-CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCAC
19437152 CATC
126 CATC
* * * * *
19437156 TTCGATTTGCTCCACTACTACTTAGGGAGATGAGATCTAAAATCTTCAATCTATTCCACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCTACTCCACTGC-AC
* *
19437221 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATAACAGGGAGGTAAAATCCGCCA
63 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCA
19437286 TC
128 TC
* * * * *
19437288 TTCAATCTACTCCACAACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCCAA
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCTACTCCACTG-CAC
* * * *
19437353 CCAGGGAGATAGAATTACTGGCTTCAATATACTCTACTGTAACCACAGGGAGGTAAAATCCGCCA
63 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCA
19437418 TC
128 TC
* * * *
19437420 TTCGATATACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCTACTCCACTGC-AC
* * * * **
19437485 TCAGAGAAATAGAATTACTGGCTTCAATGTATTCCACTGTAATCACAGGGAGGTAAAATCTGCCA
63 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCA
19437550 TC
128 TC
* * * * *
19437552 TTCGATGTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCTACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCTACTCCACTGC-AC
*
19437617 CCAGGGA-AGTAGAATGACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
63 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
19437681 ATC
127 ATC
* * ** * * *
19437684 TTCAATTTGCTCCACTACCGCCTAGGGAGGTAAGATCTGAAATCTTCAATCTACTCCACTACTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCTACTCCACTGC-AC
*
19437749 CCAGGGA-AGTAGAATTACTGGCTTCAATGAACTCCACTGTAATCACAGGGAGGTAAAATCCACC
63 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
19437813 ATC
127 ATC
** * * * * **
19437816 TTCGATCTGCTCCACTACCGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGG
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCTACTCCACTGC-AC
19437881 CCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
63 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
19437945 ATC
127 ATC
* * * ** * * * *
19437948 TTC---CTGCCCCACTTCAACCGAGGGAGGCAAGGTCTGTAATCTTCAATCTATTCCACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATC--TAATCTTCAATCTACTCCACTGC-AC
*
19438010 CTAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
63 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
19438074 ATC
127 ATC
* * ** * * * * *
19438077 TTC---CTGCTCCACTGCAACCGAGGGAGGCAAGGTCTGTAATCTTTAATCTATTCCACTGCTGC
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATC--TAATCTTCAATCTACTCCACTGC-AC
*
19438139 CCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTGAAATCCACC
63 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACC
19438203 ATC
127 ATC
* * * *
19438206 TTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCT
1 TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCT--AATCTTCAATCT
19438258 CCTTCGCTGT
Statistics
Matches: 994, Mismatches: 94, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
129 239 0.24
130 1 0.00
131 3 0.00
132 731 0.74
133 13 0.01
135 4 0.00
136 3 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (129 bp):
TTCGATCTGCTCCACTACTACTTAGGGAGGTAAGATCTAATCTTCAATCTACTCCACTGCACCCA
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATC
Found at i:19437315 original size:44 final size:44
Alignment explanation
Indices: 19437242--19437876 Score: 169
Period size: 44 Copynumber: 14.4 Consensus size: 44
19437232 GAATTACTGG
* * *
19437242 CTTCAATGTACTCCACTGTAA-TAAC-AGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* *
19437287 CTTCAATCTACTCCAC-AACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTAC-TAGGGAGGTAAAATCTGCAAT
* ** * * * * * ***
19437331 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
* * * * *
19437374 CTTCAATATACTCTACTGTAACCAC-AGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCAC--TAACTACTAGGGAGGTAAAATCTGCAAT
* * * *
19437419 CTTCGATATACTCCACT-ACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTAC-TAGGGAGGTAAAATCTGCAAT
* * * * ** * * ***
19437463 CTTCAATCTATTCCACT-GCTGCTCAGAGAAATAGAAT-TACTGG
1 CTTCAATCTACTCCACTAACTACT-AGGGAGGTAAAATCTGCAAT
* * *
19437506 CTTCAATGTATTCCACTGTAA-TCAC-AGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* * * *
19437551 CTTCGATGTACTCCACT-ACTACTTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTAC-TAGGGAGGTAAAATCTGCAAT
* * * * * * * *
19437595 CTTCAATCTATTCTACT-GCTGCCCAGGGAAGTAGAATGACTG---G
1 CTTCAATCTACTCCACTAACT-ACTAGGGAGGTAAAAT--CTGCAAT
* ** *
19437638 CTTCAATGTACTCCACTGTAA-TCAC-AGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* * * ** * *
19437683 CTTCAATTTGCTCCACTACCGCCTAGGGAGGTAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
* * * * * ***
19437727 CTTCAATCTACTCCACT-ACTGCCCAGGGAAGTAGAAT-TACTGG
1 CTTCAATCTACTCCACTAACT-ACTAGGGAGGTAAAATCTGCAAT
** ** *
19437770 CTTCAATGAACTCCACTGTAA-TCAC-AGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCAC--TAACT-ACTAGGGAGGTAAAATCTGCAAT
* * * ** * * *
19437815 CTTCGATCTGCTCCACTACCGCCTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
*
19437859 CTTCAATCTATTCCACTA
1 CTTCAATCTACTCCACTA
19437877 CTGGCCAGGG
Statistics
Matches: 414, Mismatches: 140, Indels: 73
0.66 0.22 0.12
Matches are distributed among these distances:
42 12 0.03
43 70 0.17
44 237 0.57
45 90 0.22
46 5 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
CTTCAATCTACTCCACTAACTACTAGGGAGGTAAAATCTGCAAT
Found at i:19437472 original size:264 final size:264
Alignment explanation
Indices: 19437101--19438257 Score: 1628
Period size: 264 Copynumber: 4.4 Consensus size: 264
19437091 GGGGAGATAA
* * ** * *
19437101 AATTACAGGCTTCCATGTACTCCACTGTAATCACAATGAGGTAAAATCCATCATCTTCGATTTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
* * * *
19437166 TCCACTACTACTTAGGGAGATGAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGA
66 TCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-
* * *
19437230 TAGAATTACTGGCTTCAATGTACTCCACTGTAATAACAGGGAGGTAAAATCCGCCATCTTCAATC
130 TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATC
* * ***
19437295 TACTCCACAACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGG-
195 TACTCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
19437359 AGATAG
260 AG-TAG
* * * * * *
19437365 AATTACTGGCTTCAATATACTCTACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATATAC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
* * * *
19437430 TCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTCAGAGAAAT
66 TCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGT
* ** *
19437495 AGAATTACTGGCTTCAATGTATTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCTTCGATGT
131 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCT
* *
19437560 ACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCTACTGCTGCCCAGGGAA
196 ACTCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
19437625 GTAG
261 GTAG
* * *
19437629 AATGACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCAATTTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
** * *
19437694 TCCACTACCGCCTAGGGAGGTAAGATCTGAAATCTTCAATCTACTCCACTACTGCCCAGGGAAGT
66 TCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGT
*
19437759 AGAATTACTGGCTTCAATGAACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCT
131 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCT
* ** * * *
19437824 GCTCCACTACCGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGGCCAGGGAA
196 ACTCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
19437889 GTAG
261 GTAG
19437893 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTC---CTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
* * * * * * * *
19437955 CCCACTTCAACCGAGGGAGGCAAGGTCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGT
66 TCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGT
19438020 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTC---CT
131 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCT
* * * * * * * *
19438082 GCTCCACTGCAACCGAGGGAGGCAAGGTCTGTAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
196 ACTCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
19438147 GTAG
261 GTAG
* *
19438151 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTGAAATCCACCATCTTCGATCTAC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
* *
19438216 TCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCT
66 TCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCT
19438258 CCTTCGCTGT
Statistics
Matches: 796, Mismatches: 92, Indels: 13
0.88 0.10 0.01
Matches are distributed among these distances:
258 117 0.15
261 152 0.19
264 524 0.66
265 3 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (264 bp):
AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
TCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATCT
ACTCCACTACTACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
GTAG
Found at i:19437734 original size:396 final size:395
Alignment explanation
Indices: 19437101--19438257 Score: 1675
Period size: 396 Copynumber: 2.9 Consensus size: 395
19437091 GGGGAGATAA
* * ** * *
19437101 AATTACAGGCTTCCATGTACTCCACTGTAATCACAATGAGGTAAAATCCATCATCTTCGATTTGC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATGT-C
* * *
19437166 TCCACTACTACTTAGGGAGATGAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGA
65 TCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-
* *
19437230 TAGAATTACTGGCTTCAATGTACTCCACTGTAATAACAGGGAGGTAAAATCCGCCATCTTCAATC
129 TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCAATC
* * * * ***
19437295 TACTCCACAACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGG-
194 TGCTCCACTACAACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
* * *
19437359 AGATAGAATTACTGGCTTCAATATACTCTACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCG
259 AG-TAGAATTACTGGCTTCAATATACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCG
* * * * *
19437424 ATATACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCT-GCTCA
323 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGGC-CA
19437488 GAGAAATAG
387 GAGAAATAG
* **
19437497 AATTACTGGCTTCAATGTATTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCTTCGATGTAC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATGT-C
*
19437562 TCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCTACTGCTGCCCAGGGAAGT
65 TCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGT
* *
19437627 AGAATGACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCAATTT
130 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCAATCT
** * *
19437692 GCTCCACTACCGCCTAGGGAGGTAAGATCTGAAATCTTCAATCTACTCCACTACTGCCCAGGGAA
195 GCTCCACTACAACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
19437757 GTAGAATTACTGGCTTCAATGA-ACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGA
260 GTAGAATTACTGGCTTCAAT-ATACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGA
* * *
19437821 TCTGCTCCACTACCGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGGCCAGG
324 TCTACTCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGGCCAGA
*
19437886 GAAGTAG
389 GAAATAG
* *
19437893 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTC-CTG-CC
1 AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATGTCT
* * ** * * * *
19437956 CCACTTCAACCGAGGGAGGCAAGGTCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTA
66 CCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
19438021 GAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTC---CTG
131 GAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCAATCTG
* * * * * *
19438083 CTCCACTGCAACCGAGGGAGGCAAGGTCTGTAATCTTTAATCTATTCCACTGCTGCCCAGGGAAG
196 CTCCACTACAACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
* *
19438148 TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTGAAATCCACCATCTTCGATC
261 TAGAATTACTGGCTTCAATATACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATC
19438213 TACTCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCT
326 TACTCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCT
19438258 CCTTCGCTGT
Statistics
Matches: 686, Mismatches: 70, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
390 162 0.24
393 115 0.17
395 2 0.00
396 400 0.58
397 7 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (395 bp):
AATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATGTCT
CCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
GAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCAATCTG
CTCCACTACAACCTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
TAGAATTACTGGCTTCAATATACTCCACTGTAATCACAGGGAGGTAAAATCCACCATCTTCGATC
TACTCCACTACTGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGGCCAGAGA
AATAG
Found at i:19440499 original size:6 final size:6
Alignment explanation
Indices: 19440464--19440497 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19440454 TCTTTTCTTT
*
19440464 TTTTCA TTTTCA TTTTCA TTTTCA TTTTGA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
19440498 GACTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:19440579 original size:25 final size:22
Alignment explanation
Indices: 19440501--19440579 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 22
19440491 TGATTTTGAC
*
19440501 TTTTTTTTCTT-TTTTTTTTAT
1 TTTTTTTTTTTATTTTTTTTAT
* *
19440522 ATTTTTTGTTTTATATTTTTTGAT
1 -TTTTTTTTTTTAT-TTTTTTTAT
19440546 TTTGTTTTTTATTACTTTTTTTTAT
1 TTT-TTTTTT-TTA-TTTTTTTTAT
*
19440571 TTTTCTTTT
1 TTTTTTTTT
19440580 CTTTTTTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 9 0.20
23 4 0.09
24 18 0.39
25 14 0.30
26 1 0.02
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (22 bp):
TTTTTTTTTTTATTTTTTTTAT
Found at i:19447983 original size:30 final size:30
Alignment explanation
Indices: 19447942--19447998 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
19447932 TGACTCAGCT
* *
19447942 ATGTATGGCACACAGCTTGGCGACATGACC
1 ATGTATGGCACACAGCCTGGCAACATGACC
* *
19447972 ATGTGTGGCACACGGCCTGGCAACATG
1 ATGTATGGCACACAGCCTGGCAACATG
19447999 GCTGTGGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (30 bp):
ATGTATGGCACACAGCCTGGCAACATGACC
Found at i:19460396 original size:20 final size:22
Alignment explanation
Indices: 19460368--19460407 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
19460358 AGAATAAATG
*
19460368 AGAATAAAGA-AA-CTAAGTTT
1 AGAAGAAAGATAACCTAAGTTT
19460388 AGAAGAAAGATAACCTAAGT
1 AGAAGAAAGATAACCTAAGT
19460408 GCATTAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.20
Consensus pattern (22 bp):
AGAAGAAAGATAACCTAAGTTT
Found at i:19466327 original size:17 final size:17
Alignment explanation
Indices: 19466305--19466345 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
19466295 GTTGAATTCT
*
19466305 AATAGCTAAAGGTATTA
1 AATAGCTAAACGTATTA
19466322 AATAGCTAAACGTATTA
1 AATAGCTAAACGTATTA
19466339 AATAGCT
1 AATAGCT
19466346 CAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (17 bp):
AATAGCTAAACGTATTA
Found at i:19467473 original size:25 final size:25
Alignment explanation
Indices: 19467418--19467473 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
19467408 GTTTCGACCC
* ** *
19467418 ACAGCTCATGTGAGCATATTGATTT
1 ACAGCTCATGAGAGCATATCAATCT
* *
19467443 ATAGCTCGTGAGAGCATATCAATCT
1 ACAGCTCATGAGAGCATATCAATCT
19467468 ACAGCT
1 ACAGCT
19467474 TGAGTGAGCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
ACAGCTCATGAGAGCATATCAATCT
Found at i:19467482 original size:25 final size:25
Alignment explanation
Indices: 19467454--19467511 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
19467444 TAGCTCGTGA
*
19467454 GAGCATATCAA-TCTACAGCTTG-AGT
1 GAGCATACCAATTC-ACAGCTTGTA-T
*
19467479 GAGCATACCGATTCACAGCTTGTAT
1 GAGCATACCAATTCACAGCTTGTAT
19467504 GAGCATAC
1 GAGCATAC
19467512 ATGTACATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
GAGCATACCAATTCACAGCTTGTAT
Found at i:19469846 original size:27 final size:27
Alignment explanation
Indices: 19469816--19470020 Score: 180
Period size: 27 Copynumber: 7.6 Consensus size: 27
19469806 ATATTGAGCC
* *
19469816 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
19469843 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19469870 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
19469898 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
19469925 CGCACACTTAGGGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * **
19469952 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19469979 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
19470006 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19470021 GTACAATTTA
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
27 127 0.84
28 25 0.16
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19469981 original size:54 final size:53
Alignment explanation
Indices: 19469816--19470019 Score: 205
Period size: 54 Copynumber: 3.8 Consensus size: 53
19469806 ATATTGAGCC
* * * *
19469816 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAGTCAA-TCGCACACTTAGTGCCACATAATCAATT
* **
19469870 CGCACACTTAGTGC-TACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAGTCA-A-TCGCACACTTAGTGCCACATAATCAATT
* * * * * *
19469925 CGCACACTTAGGGCATCATATTCATTTCGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCATCATAGTCA-ATCGCACACTTAGTGCCACATAATCAATT
*
19469979 CGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGC
1 CGCACACTTAGTGCATCATAGTC-AATCGCACACTTAGTGC
19470020 TGTACAATTT
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 77 0.62
55 46 0.37
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCATCATAGTCAATCGCACACTTAGTGCCACATAATCAATT
Found at i:19489777 original size:27 final size:27
Alignment explanation
Indices: 19489746--19489923 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
19489736 TAAATTGTAC
19489746 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
19489773 TGCACTAAGTGGGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19489799 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19489827 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19489855 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19489882 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19489909 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19489924 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19489860 original size:82 final size:81
Alignment explanation
Indices: 19489747--19489902 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
19489737 AAATTGTACA
* *
19489747 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGGGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATACGTA-GCACTAAGTG
19489811 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
19489828 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGGGCGAAATGAATACGTAGCACTAAGTG
*
19489893 TGCGAGTTGA
65 TGCGAATTGA
19489903 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19489914 original size:82 final size:81
Alignment explanation
Indices: 19489743--19489923 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
19489733 GATTAAATTG
* *
19489743 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGGGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATACGATGCACTAA
19489808 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
19489824 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGGGCGAAATGAATACGAT-GCACT
* **
19489888 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19489906 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19489924 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGGGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19497794 original size:27 final size:27
Alignment explanation
Indices: 19497763--19497940 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19497753 TAAATTGTAC
19497763 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19497790 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19497816 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19497844 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19497872 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19497899 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19497926 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19497941 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19497877 original size:82 final size:81
Alignment explanation
Indices: 19497764--19497919 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19497754 AAATTGTACA
* *
19497764 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19497828 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19497845 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19497910 TGCGAGTTGA
65 TGCGAATTGA
19497920 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19497931 original size:82 final size:81
Alignment explanation
Indices: 19497760--19497940 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19497750 GATTAAATTG
* *
19497760 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19497825 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19497841 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19497905 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19497923 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19497941 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19499620 original size:41 final size:41
Alignment explanation
Indices: 19499570--19499665 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
19499560 CACCGGCATG
* *
19499570 AAGCCTGCTAGGCACAAGGCCTAAAACATTTCACTGACCTA
1 AAGCCTGCTAGGCACAAGACCTAAAACATTTCACCGACCTA
* * * * * * *
19499611 AAGCATGCTATGCTCAAGACTTGAAACATTTCACCGGCTTA
1 AAGCCTGCTAGGCACAAGACCTAAAACATTTCACCGACCTA
19499652 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
19499666 ATAAGCCCAT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGGCACAAGACCTAAAACATTTCACCGACCTA
Found at i:19507826 original size:30 final size:30
Alignment explanation
Indices: 19507787--19507859 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
19507777 CTTGAAATAC
* *
19507787 TATGAAAAGGGATAGCTTCGGCTATTGAA-T
1 TATGAAAAGGGATAACTTCGGCTA-TCAATT
*
19507817 TATGGAAAGGGATAACTTCGGCTATCAATT
1 TATGAAAAGGGATAACTTCGGCTATCAATT
19507847 TATGAAAAGGGAT
1 TATGAAAAGGGAT
19507860 GGTGACGACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 3 0.08
30 35 0.92
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.29
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTCGGCTATCAATT
Found at i:19507874 original size:30 final size:30
Alignment explanation
Indices: 19507847--19507979 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 30
19507837 GCTATCAATT
19507847 TATGAAAAGGGATGGTGACGACCATCAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAAA
* * * * ** *
19507877 TATGAAATGGGATAGCT-TCGGCTGTCAAAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAAA
* * * *
19507907 TATGCAATAGGGATGGTGCCAACCATC-AAC
1 TATG-AAAAGGGATGGTGACGACCATCAAAA
* *
19507937 TATGAAAAGGAATAGTGACGACCATCAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAAA
19507967 TATGAAAAGGGAT
1 TATGAAAAGGGAT
19507980 AGCTTCAGCT
Statistics
Matches: 76, Mismatches: 23, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
29 17 0.22
30 46 0.61
31 13 0.17
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAA
Found at i:19507890 original size:60 final size:59
Alignment explanation
Indices: 19507821--19507943 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 59
19507811 TTGAATTATG
* *
19507821 GAAAGGGATAACTTCGGCTATCAATTTATG-AAAAGGGATGGTGACGACCATCAAAATAT
1 GAAAGGGATAACTTCGGCTATCAAATTATGCAAAAGGGATGGTGACAACCATC-AAATAT
* * * * *
19507880 GAAATGGGATAGCTTCGGCTGTCAAATTATGCAATAGGGATGGTGCCAACCATCAACTAT
1 GAAA-GGGATAACTTCGGCTATCAAATTATGCAAAAGGGATGGTGACAACCATCAAATAT
19507940 GAAA
1 GAAA
19507944 AGGAATAGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 4 0.07
60 32 0.58
61 19 0.35
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (59 bp):
GAAAGGGATAACTTCGGCTATCAAATTATGCAAAAGGGATGGTGACAACCATCAAATAT
Found at i:19511652 original size:68 final size:68
Alignment explanation
Indices: 19511578--19511715 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
19511568 GATTATCGCC
*
19511578 AACTCAAAAAATTTACGATCAATAAGAAATACCCATTACCGCGTATTGATTATCTGTTTGATCAG
1 AACTCAAAAAATTTACGATCAATAAGAAATAACCATTACCGCGTATTGATTATCTGTTTGATCAG
19511643 TTG
66 TTG
* *
19511646 AACTCAAAAAATTTATGATCAATAAGAAATAACCATTACCTCGTATTGATTATCTGTTTGATCAG
1 AACTCAAAAAATTTACGATCAATAAGAAATAACCATTACCGCGTATTGATTATCTGTTTGATCAG
19511711 TTG
66 TTG
19511714 AA
1 AA
19511716 AGGTACAACA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (68 bp):
AACTCAAAAAATTTACGATCAATAAGAAATAACCATTACCGCGTATTGATTATCTGTTTGATCAG
TTG
Found at i:19518320 original size:30 final size:30
Alignment explanation
Indices: 19518270--19518401 Score: 153
Period size: 30 Copynumber: 4.4 Consensus size: 30
19518260 ACTATCGACA
19518270 AATGAAAAGGGATA-CTTCGGCTATCAAAT
1 AATGAAAAGGGATATCTTCGGCTATCAAAT
19518299 AATGAAAAGGGATATCTTCGGCTATCAAA-
1 AATGAAAAGGGATATCTTCGGCTATCAAAT
** *
19518328 ATATGAAAAGGGATAGT-TTCAACTATCGAAT
1 A-ATGAAAAGGGATA-TCTTCGGCTATCAAAT
* * * *
19518359 TACGGAAAGGGATAGCTTCGGCTATCAAAT
1 AATGAAAAGGGATATCTTCGGCTATCAAAT
*
19518389 TATGAAAAGGGAT
1 AATGAAAAGGGAT
19518402 GGTGACGACC
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
29 15 0.17
30 70 0.81
31 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (30 bp):
AATGAAAAGGGATATCTTCGGCTATCAAAT
Found at i:19518378 original size:60 final size:59
Alignment explanation
Indices: 19518251--19518401 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 59
19518241 CGTTACAGGA
* * ** *
19518251 ATAGCTTCGACTATCGACAA-ATGAAAAGGGATACTTCGGCTATCAAATAATGAAAAGGG
1 ATAGCTTCGGCTATC-AAAATATGAAAAGGGATACTTCAACTATCAAATAACGAAAAGGG
* * * * *
19518310 ATATCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACTATCGAATTACGGAAAGGG
1 ATAGCTTCGGCTATCAAAATATGAAAAGGGATA-CTTCAACTATCAAATAACGAAAAGGG
*
19518370 ATAGCTTCGGCTATCAAATTATGAAAAGGGAT
1 ATAGCTTCGGCTATCAAAATATGAAAAGGGAT
19518402 GGTGACGACC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
58 3 0.04
59 26 0.33
60 49 0.63
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (59 bp):
ATAGCTTCGGCTATCAAAATATGAAAAGGGATACTTCAACTATCAAATAACGAAAAGGG
Found at i:19518416 original size:30 final size:30
Alignment explanation
Indices: 19518382--19518521 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
19518372 AGCTTCGGCT
*
19518382 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* * * *
19518412 ATCAAAATATTAAAAGGGATAGCT-TC-AGCT
1 ATCAAAATATGAAAAGGGAT-GGTGACGA-CC
* * * *
19518442 ATCGAATTATGGGAAAGGGATTGTGACGACC
1 ATCAAAATAT-GAAAAGGGATGGTGACGACC
* **
19518473 ATC-AACTATGAAAAGGGATGGTGGTGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
*
19518502 ATCAAAATATGAAAACGGAT
1 ATCAAAATATGAAAAGGGAT
19518522 AGCTTCACCT
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
29 20 0.24
30 48 0.57
31 15 0.18
32 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:19518416 original size:90 final size:90
Alignment explanation
Indices: 19518275--19518548 Score: 313
Period size: 90 Copynumber: 3.1 Consensus size: 90
19518265 CGACAAATGA
* * ** * *
19518275 AAAGGGATA-CTTCGGCTATCAAATAATGAAAAGGGAT-ATCTTCGGCTATCAAAATATGAAAAG
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGT-GACGACCATCAAAATATGAAAAG
*
19518338 GGATAGTTTCAACTATCGAATTACGG
65 GGATAGCTTCAACTATCGAATTACGG
*
19518364 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAAATATTAAAAGG
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAAATATGAAAAGG
* *
19518429 GATAGCTTCAGCTATCGAATTATGGG
66 GATAGCTTCAACTATCGAATTA-CGG
* * * * * ** *
19518455 AAAGGGATTG-TGACGACCATC-AACTATGAAAAGGGATGGTGGTGACCATCAAAATATGAAAAC
1 AAAGGGATAGCT-TCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAAATATGAAAAG
* *
19518518 GGATAGCTTCACCTATCGAATTATGG
65 GGATAGCTTCAACTATCGAATTACGG
19518544 AAAGG
1 AAAGG
19518549 ATGGTGACAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
89 16 0.10
90 126 0.79
91 18 0.11
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (90 bp):
AAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAAATATGAAAAGG
GATAGCTTCAACTATCGAATTACGG
Found at i:19518428 original size:60 final size:59
Alignment explanation
Indices: 19518292--19518491 Score: 220
Period size: 60 Copynumber: 3.3 Consensus size: 59
19518282 TACTTCGGCT
* * ** * *
19518292 ATCAAATAATGAAAAGGGATATCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACT
1 ATCAAAT-ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACC
* * * *
19518352 ATCGAATTACGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACC
1 ATC-AAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACC
* * * * *
19518412 ATCAAAATATTAAAAGGGATAGCTTCAGCTATCGAATTATGGGAAAGGGATTGTGACGACC
1 ATC-AAATATGAAAAGGGATAGCTTCGGCTATCAAATTAT-GAAAAGGGATAGTGACGACC
*
19518473 ATCAACTATGAAAAGGGAT
1 ATCAAATATGAAAAGGGAT
19518492 GGTGGTGACC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
60 93 0.79
61 24 0.21
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (59 bp):
ATCAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACC
Found at i:19528489 original size:18 final size:17
Alignment explanation
Indices: 19528466--19528499 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19528456 TTTTAGCACT
19528466 TGTTTTTAATAATTTTTA
1 TGTTTTTAAT-ATTTTTA
*
19528484 TGTTTTTGATATTTTT
1 TGTTTTTAATATTTTT
19528500 GTAGCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TGTTTTTAATATTTTTA
Found at i:19528771 original size:33 final size:33
Alignment explanation
Indices: 19528733--19528796 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
19528723 TATAGGGACT
* *
19528733 ATGAAAAATTTGGTTACCATAGTTTGGGGTTAA
1 ATGAAAAATTTGGTTACCAAAGTTTCGGGTTAA
*
19528766 ATGAAAATTTTGGTTACCAAAGTTTCGGGTT
1 ATGAAAAATTTGGTTACCAAAGTTTCGGGTT
19528797 TAGGAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (33 bp):
ATGAAAAATTTGGTTACCAAAGTTTCGGGTTAA
Found at i:19534273 original size:56 final size:51
Alignment explanation
Indices: 19534177--19534424 Score: 270
Period size: 50 Copynumber: 4.8 Consensus size: 51
19534167 ATTTGGGTAA
* * * *
19534177 AGAGATCCCATGTAAGGCCATGTTTGGGACATGACATTGGCATCATTAAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--T-AGA-TATG
* *
19534233 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACT-GATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAGATATG
19534283 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAG--ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CTAGATATG
** * *
19534333 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCA-ATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAGATATG
** * * * *
19534383 AGAACTCCCATGTAAGACCATATCTTGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19534425 GAACAGAAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.01
50 122 0.72
51 4 0.02
52 1 0.01
53 1 0.01
55 1 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAGATATG
Found at i:19534469 original size:49 final size:50
Alignment explanation
Indices: 19534238--19534473 Score: 215
Period size: 50 Copynumber: 4.7 Consensus size: 50
19534228 TTATGAGAGG
* * ** * * **
19534238 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACTGATATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAACATGAAAAC
* * * * **
19534288 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAACATGAAAAC
** * * * *
19534338 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAACATGAAAAC
* * * *
19534388 TCCCATGTAAGACCATATCTTGGATATGGCTTTGGCA-GAACA-GAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAACATGAAAAC
* *
19534436 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
19534474 TGTATTATCA
Statistics
Matches: 158, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 5 0.03
49 35 0.22
50 118 0.75
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAACATGAAAAC
Found at i:19536550 original size:23 final size:23
Alignment explanation
Indices: 19536524--19536671 Score: 131
Period size: 23 Copynumber: 6.5 Consensus size: 23
19536514 TACTTGCAAA
* *
19536524 GCCTTTGTGGCATATTTTGCAAT
1 GCCTTTCTGGCATATTTTGTAAT
* ** * * *
19536547 GCCTTTTTTACGTATTCTATAAT
1 GCCTTTCTGGCATATTTTGTAAT
*
19536570 GTCTTTCTGGCAT-TTTCTGTAAT
1 GCCTTTCTGGCATATTT-TGTAAT
19536593 GCCTTTCTGGCATATTTTGTAAT
1 GCCTTTCTGGCATATTTTGTAAT
* *
19536616 GCC-TTGT-GCAGTATTTTGCAAT
1 GCCTTTCTGGCA-TATTTTGTAAT
* * *
19536638 GCCTTTATGGCATATTCTATAAT
1 GCCTTTCTGGCATATTTTGTAAT
19536661 GCCTTTCTGGC
1 GCCTTTCTGGC
19536672 TAATTCTACA
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
21 3 0.03
22 18 0.18
23 71 0.72
24 6 0.06
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (23 bp):
GCCTTTCTGGCATATTTTGTAAT
Found at i:19536667 original size:68 final size:69
Alignment explanation
Indices: 19536524--19536671 Score: 181
Period size: 68 Copynumber: 2.2 Consensus size: 69
19536514 TACTTGCAAA
* * ** * * * * *
19536524 GCCTTTGTGGCATATTTTGCAATGCCTTTTTTACGTATTCTATAATGTCTTTCTGGCATTTTCTG
1 GCCTTTCTGGCATATTTTGCAATGCCTTGTGCACGTATTCTACAATGCCTTTATGGCATATTCTA
19536589 TAAT
66 TAAT
* * *
19536593 GCCTTTCTGGCATATTTTGTAATGCCTTGTGCA-GTATTTTGCAATGCCTTTATGGCATATTCTA
1 GCCTTTCTGGCATATTTTGCAATGCCTTGTGCACGTATTCTACAATGCCTTTATGGCATATTCTA
19536657 TAAT
66 TAAT
19536661 GCCTTTCTGGC
1 GCCTTTCTGGC
19536672 TAATTCTACA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 39 0.58
69 28 0.42
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (69 bp):
GCCTTTCTGGCATATTTTGCAATGCCTTGTGCACGTATTCTACAATGCCTTTATGGCATATTCTA
TAAT
Found at i:19544636 original size:35 final size:35
Alignment explanation
Indices: 19544595--19544745 Score: 167
Period size: 35 Copynumber: 4.3 Consensus size: 35
19544585 ACACTCTGTT
*
19544595 TGGCGTGTTTCGGTTGGATTAGCTCTTATGGGCAC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAC
* *
19544630 TGGCGTGTTTCAGTCGGATTAGCTCTTATGAGCAC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAC
* * *
19544665 TGGCGTGTTTCGGTTGGATTAGCTCTTGTGACCATT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA-C
* * ** * **
19544701 TGGTGTGTTTTGGAGGGATTGGCTCCAATGAGCATC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA-C
19544737 TGGCGTGTT
1 TGGCGTGTT
19544746 ATGGTTTGAC
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 62 0.65
36 34 0.35
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (35 bp):
TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAC
Found at i:19548432 original size:27 final size:27
Alignment explanation
Indices: 19548402--19548579 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
19548392 ATATTGAGCC
* * *
19548402 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
19548429 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19548456 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
19548484 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
19548511 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
19548538 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19548565 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
19548580 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19548541 original size:82 final size:81
Alignment explanation
Indices: 19548423--19548578 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
19548413 TGCTATAAAA
* * *
19548423 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
19548488 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19548505 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
19548569 CCCTTAGTGC
65 CACTTAGTGC
19548579 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19562359 original size:16 final size:17
Alignment explanation
Indices: 19562338--19562372 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19562328 AGATTTGATC
19562338 ATATTT-TATTTAATAA
1 ATATTTATATTTAATAA
*
19562354 ATATTTATTTTTAATAA
1 ATATTTATATTTAATAA
19562371 AT
1 AT
19562373 TAATAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTTAATAA
Found at i:19566270 original size:107 final size:102
Alignment explanation
Indices: 19566139--19566344 Score: 324
Period size: 107 Copynumber: 2.0 Consensus size: 102
19566129 TAACAAGAAA
*
19566139 GATAATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAGAATAACAAAGT
1 GATAATTTAAAGGACAAAGCTTTAATTTATTAAATAAAACTTAAAT---AA-A-AA-AACAAAGT
*
19566204 TATCATCTTCCTAAAAGGGAACC-GCCAAAAATTAGGGTGCAC
60 TATCATCTTCCTAAAAGGGAACCAACCAAAAATTAGGGTGCAC
*
19566246 GATAATTTAAAGGACAAAGTTTTAATTTATTAAATAAAACTTAAATAAAAAAACAAAGTTATCAT
1 GATAATTTAAAGGACAAAGCTTTAATTTATTAAATAAAACTTAAATAAAAAAACAAAGTTATCAT
19566311 CTTCCTAAAAGGGAACCAACCAAAAATTAGGGTG
66 CTTCCTAAAAGGGAACCAACCAAAAATTAGGGTG
19566345 TTAAAACACC
Statistics
Matches: 95, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
101 31 0.33
102 17 0.18
103 1 0.01
104 2 0.02
107 44 0.46
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (102 bp):
GATAATTTAAAGGACAAAGCTTTAATTTATTAAATAAAACTTAAATAAAAAAACAAAGTTATCAT
CTTCCTAAAAGGGAACCAACCAAAAATTAGGGTGCAC
Found at i:19567105 original size:40 final size:40
Alignment explanation
Indices: 19567056--19567283 Score: 204
Period size: 40 Copynumber: 5.7 Consensus size: 40
19567046 TTATTGAATG
* * *
19567056 AATGAACATACCTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* ** * * *
19567096 AATGCACATATGTGCCCCTAAATATACTTCGATACCCCTG
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * * *
19567136 AATGCACATACATGCCCCTTTTTGCACTTCGGTACCCATG
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* ** * * * * *
19567176 AATACACATTTGTTCCCCTAATTGTACCTCGATACCCTTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * *
19567216 AATACACATACGTGCCCCGATTTGTACTTCGGTTCCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
** *
19567256 AATGCATTTACGTGCCCCTATTTATACT
1 AATGCACATACGTGCCCCTATTTGTACT
19567284 CTGGTAACTC
Statistics
Matches: 144, Mismatches: 44, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:19567152 original size:80 final size:80
Alignment explanation
Indices: 19567054--19567275 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
19567044 AATTATTGAA
* *
19567054 TGAATGAACATACCTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
*
19567119 ATACTTCGATACCCC
66 ATACCTCGATACCCC
* * * * * * * *
19567134 TGAATGCACATACATGCCCCTTTTTGCACTTCGGTACCCATGAATACACATTTGTTCCCCTAATT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
* *
19567199 GTACCTCGATACCCT
66 ATACCTCGATACCCC
* * * * ** *
19567214 TAAATACACATACGTGCCCC-GATTTGTACTTCGGTTCCCCTAAATGCATTTACGTGCCCCTA
1 TGAATGCACATACATGCCCCTG-TTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTA
19567276 TTTATACTCT
Statistics
Matches: 114, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
80 114 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (80 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTAAAT
ATACCTCGATACCCC
Found at i:19569874 original size:13 final size:13
Alignment explanation
Indices: 19569858--19569883 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19569848 TATAATAAAA
19569858 TAAAATAATATTT
1 TAAAATAATATTT
19569871 TAAAATAATATTT
1 TAAAATAATATTT
19569884 AATGAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATAATATTT
Found at i:19571962 original size:85 final size:84
Alignment explanation
Indices: 19571785--19572159 Score: 291
Period size: 85 Copynumber: 4.4 Consensus size: 84
19571775 TTCGATCTAT
* * * * * *
19571785 TCCACTGTAATCTCAGGGAGATAAGA-CCT-GATGCGATCTACTCTACTGTAA-CTTCAGAGAGA
1 TCCACTGTAATCTCAGGGAGATAGGATACTAGATTCGATCTGCTCCACTGTAATC-TCAGGGAGA
* * *
19571847 TAAGATCCTTTATTTTAATCCGC
65 TAAGAT--TTGA-TTCAATCTGC
*
19571870 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGA-TACTAGATTCGATCTGCTCCACTGTAATCTCAGGGAGA
* *
19571935 TAAGATTTGATACGATCTGC
65 TAAGATTTGATTCAATCTGC
* * * * ** ** *
19571955 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTAATCTGCTCCACTATAATCTCAGGGAGA
1 TCCACTGTAATC-TCAGGGAGATAGGATACTAGATTCGATCTGCTCCACTGTAATCTCAGGGAGA
* *
19572019 TAGGATTACTAGCTTCAATCTGC
65 TAAGATT--T-GATTCAATCTGC
* * *
19572042 TCCACTGTAATCTCAGGGAGATAAGG--CCT-GATAT-GATCTGCTCTACTGTAA-CTTCAGAGA
1 TCCACTGTAATCTCAGGGAGAT-AGGATACTAGAT-TCGATCTGCTCCACTGTAATC-TCAGGGA
* *
19572102 GATAAGATCCTTTATTTTAATCTGC
63 GATAAGAT--TTGA-TTCAATCTGC
19572127 TCCACTGTAATCTCAGGGAGATAGGATTACTAG
1 TCCACTGTAATCTCAGGGAGATAGGA-TACTAG
19572160 CTTCAGTCTG
Statistics
Matches: 232, Mismatches: 39, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
84 42 0.18
85 113 0.49
86 8 0.03
87 32 0.14
88 36 0.16
89 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (84 bp):
TCCACTGTAATCTCAGGGAGATAGGATACTAGATTCGATCTGCTCCACTGTAATCTCAGGGAGAT
AAGATTTGATTCAATCTGC
Found at i:19572059 original size:128 final size:129
Alignment explanation
Indices: 19571785--19572169 Score: 673
Period size: 128 Copynumber: 3.0 Consensus size: 129
19571775 TTCGATCTAT
* *
19571785 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
* *
19571850 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGC
66 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
**
19571914 TCCACTGTAATCTCAGGGAGATAAGATTTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
*
19571979 GATCCTTTA-TTTAATCTGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
66 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
* *
19572042 TCCACTGTAATCTCAGGGAGATAAGGCCTGATATGATCTGCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
*
19572107 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAGTCTG
66 GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
19572170 TTCTACCACT
Statistics
Matches: 242, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
128 121 0.50
129 121 0.50
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
Found at i:19572475 original size:26 final size:26
Alignment explanation
Indices: 19572439--19572490 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19572429 TTCTTCCGAG
19572439 AATGATCCCACATAGGTTGTCATTAC
1 AATGATCCCACATAGGTTGTCATTAC
*
19572465 AATGATCCCACTTAGGTTGTCATTAC
1 AATGATCCCACATAGGTTGTCATTAC
19572491 TCAAAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (26 bp):
AATGATCCCACATAGGTTGTCATTAC
Found at i:19580714 original size:18 final size:19
Alignment explanation
Indices: 19580677--19580715 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
19580667 AGTGGACCTG
19580677 AATGCATATGATGCAATGT
1 AATGCATATGATGCAATGT
19580696 AATGCA-ATGCATG-AATGT
1 AATGCATATG-ATGCAATGT
19580714 AA
1 AA
19580716 AGAGGCGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (19 bp):
AATGCATATGATGCAATGT
Found at i:19584400 original size:13 final size:13
Alignment explanation
Indices: 19584384--19584409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19584374 TATAATAAAA
19584384 TAAAATAATATTT
1 TAAAATAATATTT
19584397 TAAAATAATATTT
1 TAAAATAATATTT
19584410 AATGAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATAATATTT
Found at i:19584509 original size:23 final size:22
Alignment explanation
Indices: 19584479--19584525 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
19584469 AATATATTAA
19584479 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
19584501 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
19584524 AA
1 AA
19584526 AAACAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:19585987 original size:24 final size:23
Alignment explanation
Indices: 19585956--19586002 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
19585946 GACTGTGGAC
* *
19585956 ATTTTAAATTTGGTTTTATTTTT
1 ATTTTAAAATTGGGTTTATTTTT
19585979 ATTTATAAAATTGGGTTTATTTTT
1 ATTT-TAAAATTGGGTTTATTTTT
19586003 GGTTTGCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.64
Consensus pattern (23 bp):
ATTTTAAAATTGGGTTTATTTTT
Found at i:19591440 original size:40 final size:40
Alignment explanation
Indices: 19591373--19591470 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
19591363 AATTATTGAA
** ** * *
19591373 TGAATGCACATATGTGCCCCTATTTGTACTTCAGTACTCC
1 TGAATGCACATACATGCCAATAATTGTACTTCAGTACCCC
*
19591413 TGAATGCACATACATGCCAATAATTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCAATAATTGTACTTCAGTACCCC
*
19591453 TGAATGCACTTACATGCC
1 TGAATGCACATACATGCC
19591471 CTTGCTTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACATGCCAATAATTGTACTTCAGTACCCC
Found at i:19593523 original size:7 final size:7
Alignment explanation
Indices: 19593511--19593537 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19593501 GCAATTTAAT
19593511 AATTTTA
1 AATTTTA
19593518 AATTTTA
1 AATTTTA
19593525 AATTTTA
1 AATTTTA
19593532 AATTTT
1 AATTTT
19593538 GAAGTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:19594040 original size:28 final size:29
Alignment explanation
Indices: 19594005--19594078 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
19593995 ATAAAATTTT
19594005 AATAATTTTAATAATTTTT-ATTTTTAAA
1 AATAATTTTAATAATTTTTGATTTTTAAA
* *
19594033 AATAATTTTTATAATTGTTTTGATTTTTTAA
1 AATAATTTTAATAA-T-TTTTGATTTTTAAA
*
19594064 AA-AATTTGAA-AATTT
1 AATAATTTTAATAATTT
19594079 AATTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.05
28 14 0.36
29 3 0.08
30 10 0.26
31 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
AATAATTTTAATAATTTTTGATTTTTAAA
Found at i:19599966 original size:4 final size:4
Alignment explanation
Indices: 19599959--19599998 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
19599949 TTGGTTATGG
*
19599959 AGTT AGTT ATTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT
1 AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT
19599999 GGTTGGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
AGTT
Found at i:19604080 original size:15 final size:15
Alignment explanation
Indices: 19604041--19604092 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
19604031 ATGCATGAAT
19604041 AATAATAATGCAAGTAAC
1 AATAATAAT--AA-TAAC
19604059 AAT-ATAATAATAAC
1 AATAATAATAATAAC
*
19604073 AATAATAACAATAAC
1 AATAATAATAATAAC
*
19604088 GATAA
1 AATAA
19604093 AGATAATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 7 0.23
15 16 0.52
17 5 0.16
18 3 0.10
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.23
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:19606119 original size:44 final size:44
Alignment explanation
Indices: 19606029--19606278 Score: 205
Period size: 44 Copynumber: 5.6 Consensus size: 44
19606019 AATCCACTCT
* * * * * *
19606029 ACTGCAACTTTAGGGAGATAGGATTAGTAACTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
* * *
19606073 ACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
* * * * * *
19606117 ACTACAACTTCAGGGGGACAAGGTTTGT-TACTTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAT-CTTCAATCTGCTCC
* * * ** *
19606161 ACTGTAACTTCAGAGAGATAAGGTTTGTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
* * *
19606205 ACTGAAACTTCAAGAAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTA-----TCTTCAATCTGCTCC
* *
19606254 ACTGCAAATTCAGAGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
19606279 GGTTTATTTT
Statistics
Matches: 161, Mismatches: 38, Indels: 9
0.77 0.18 0.04
Matches are distributed among these distances:
43 1 0.01
44 127 0.79
49 33 0.20
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCC
Found at i:19613552 original size:30 final size:31
Alignment explanation
Indices: 19613484--19613542 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
19613474 CACCCTTAAA
* **
19613484 ATATTTACACTATTGATCTTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
19613515 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
19613543 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:19615597 original size:18 final size:18
Alignment explanation
Indices: 19615574--19615614 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
19615564 CTGTGTTCGC
* *
19615574 CCTTGGATTGGGTTCCTG
1 CCTTGGATTGGCTTCCAG
19615592 CCTTGGATTGGCTTCCAG
1 CCTTGGATTGGCTTCCAG
19615610 CCTTG
1 CCTTG
19615615 AAGAGCCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.27, G:0.29, T:0.37
Consensus pattern (18 bp):
CCTTGGATTGGCTTCCAG
Found at i:19620428 original size:9 final size:9
Alignment explanation
Indices: 19620414--19620446 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
19620404 ATAGCAATAT
19620414 AATAATAAC
1 AATAATAAC
19620423 AATAATAAC
1 AATAATAAC
19620432 AATAATAAC
1 AATAATAAC
19620441 AATAAT
1 AATAAT
19620447 GATAAAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAATAAC
Found at i:19624349 original size:17 final size:18
Alignment explanation
Indices: 19624320--19624355 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19624310 TTTGTCTTCT
19624320 ATTTAAGTTATTTCTTTA
1 ATTTAAGTTATTTCTTTA
*
19624338 ATTTAA-TTATTTTTTTA
1 ATTTAAGTTATTTCTTTA
19624355 A
1 A
19624356 CATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTAAGTTATTTCTTTA
Found at i:19625949 original size:25 final size:25
Alignment explanation
Indices: 19625860--19625954 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
19625850 CGTTCTGACC
*
19625860 CACAGCTCGTGTGAGCATACCGATT
1 CACAGCTCGTATGAGCATACCGATT
* * * * * *
19625885 TATAACTTGTGA-GAGTATACTGA-T
1 CACAGCTCGT-ATGAGCATACCGATT
*
19625909 CTACAGCTC-AAGTGAGCATACCGATT
1 C-ACAGCTCGTA-TGAGCATACCGATT
19625935 CACAGCTCGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
19625955 ATGTACAGGA
Statistics
Matches: 49, Mismatches: 15, Indels: 12
0.64 0.20 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 44 0.90
26 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:19629395 original size:15 final size:15
Alignment explanation
Indices: 19629375--19629403 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19629365 AGTTCTTTAC
19629375 TTTTTTATACATTAA
1 TTTTTTATACATTAA
19629390 TTTTTTATACATTA
1 TTTTTTATACATTA
19629404 CTTCAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTTATACATTAA
Found at i:19629746 original size:5 final size:5
Alignment explanation
Indices: 19629736--19629761 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19629726 TTTTTTGCAA
19629736 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
19629762 TTTTCCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:19634197 original size:6 final size:6
Alignment explanation
Indices: 19634186--19634221 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
19634176 TCAATCTCCC
19634186 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT -TTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
19634222 CCCTCCCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:19635244 original size:17 final size:17
Alignment explanation
Indices: 19635177--19635244 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
19635167 TTTATATTCA
19635177 ATTTTTTT-ATTTTTATGT
1 ATTTTTTTAATTTTTA--T
* * *
19635195 AGTTTTTCAATATTATAT
1 ATTTTTTTAAT-TTTTAT
* *
19635213 ATTTTTTAAAATTTTAT
1 ATTTTTTTAATTTTTAT
19635230 ATTTTTTTAATTTTT
1 ATTTTTTTAATTTTT
19635245 TAAAATTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 18 0.46
18 15 0.38
19 2 0.05
20 4 0.10
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTTTTAATTTTTAT
Found at i:19636660 original size:19 final size:19
Alignment explanation
Indices: 19636611--19636660 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
19636601 GTTGTTGTTT
* *
19636611 TTTTACTGTTTTATTGCTT
1 TTTTATTGTTTTATTGCTA
* *
19636630 TTTTATTATTTTGTTGCTA
1 TTTTATTGTTTTATTGCTA
*
19636649 TTTTCTTGTTTT
1 TTTTATTGTTTT
19636661 TTTCAGTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTATTGTTTTATTGCTA
Found at i:19640489 original size:40 final size:39
Alignment explanation
Indices: 19640444--19640568 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
19640434 CACCCAATAC
*
19640444 CTCATCGGATAATTTGAAGTAATAAATCGACACCCAGTGT
1 CTCATCGGATAATCTGAAGTAATAAAT-GACACCCAGTGT
* * * *
19640484 CTCATCGGCTAAGCTGAAGTAAGT---TGACACCTAGTGC
1 CTCATCGGATAATCTGAAGTAA-TAAATGACACCCAGTGT
* * *
19640521 CTCATCGAATTAATCTGAAGTACTAAATTAACACCCAGTGT
1 CTCATCGGA-TAATCTGAAGTAATAAA-TGACACCCAGTGT
19640562 CTCATCG
1 CTCATCG
19640569 ACTCAAAGTC
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
37 18 0.27
38 12 0.18
40 19 0.28
41 18 0.27
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (39 bp):
CTCATCGGATAATCTGAAGTAATAAATGACACCCAGTGT
Found at i:19640566 original size:41 final size:39
Alignment explanation
Indices: 19640444--19640569 Score: 121
Period size: 41 Copynumber: 3.2 Consensus size: 39
19640434 CACCCAATAC
* * *
19640444 CTCATCGGATAATTTGAAGTAATAAATCGACACCCAGTGT
1 CTCATCGAATAATCTGAAGT-ATAAATTGACACCCAGTGT
** * * * *
19640484 CTCATCGGCTAAGCTGAAG--TAAGTTGACACCTAGTGC
1 CTCATCGAATAATCTGAAGTATAAATTGACACCCAGTGT
*
19640521 CTCATCGAATTAATCTGAAGTACTAAATTAACACCCAGTGT
1 CTCATCGAA-TAATCTGAAGTA-TAAATTGACACCCAGTGT
19640562 CTCATCGA
1 CTCATCGA
19640570 CTCAAAGTCG
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
37 21 0.31
38 9 0.13
40 16 0.24
41 22 0.32
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (39 bp):
CTCATCGAATAATCTGAAGTATAAATTGACACCCAGTGT
Found at i:19641421 original size:17 final size:17
Alignment explanation
Indices: 19641399--19641436 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19641389 GAAACCCTAG
19641399 CTTTTTCTACTTTCTTT
1 CTTTTTCTACTTTCTTT
* *
19641416 CTTTTTTTATTTTCTTT
1 CTTTTTCTACTTTCTTT
19641433 CTTT
1 CTTT
19641437 CCTTCTCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTACTTTCTTT
Found at i:19644017 original size:20 final size:20
Alignment explanation
Indices: 19643992--19644033 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
19643982 TGATACCTTG
19643992 TTGGTTGATGCCAATATGGC
1 TTGGTTGATGCCAATATGGC
19644012 TTGGTTGATGCCAATATGGC
1 TTGGTTGATGCCAATATGGC
19644032 TT
1 TT
19644034 TGTTCATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (20 bp):
TTGGTTGATGCCAATATGGC
Found at i:19651669 original size:20 final size:20
Alignment explanation
Indices: 19651644--19651685 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
19651634 TGATACCTTG
19651644 TTGGTTGATGCCAATATGGC
1 TTGGTTGATGCCAATATGGC
19651664 TTGGTTGATGCCAATATGGC
1 TTGGTTGATGCCAATATGGC
19651684 TT
1 TT
19651686 TGTTCATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (20 bp):
TTGGTTGATGCCAATATGGC
Found at i:19653674 original size:111 final size:111
Alignment explanation
Indices: 19653473--19653722 Score: 347
Period size: 111 Copynumber: 2.2 Consensus size: 111
19653463 TCGTTTGTAT
* *
19653473 TTGCCACAAGGGCTTTCCTTTACAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
1 TTGCCACAAAGGCTTTCCTATACAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
** * *
19653538 AGGTGTTCCTTTTCAGATATAGCCACGAAGGCTTCCTTTACAGAGA
66 AGGCATTCCTTTTCAGATATAGCCACAAAGGCTTCATTTACAGAGA
* * * * *
19653584 TTGCCACAAAGACTTTCCTATCCAGAGTTGACACCAAGGCATCCTCTCTTTAGGTTGCGCCACGA
1 TTGCCACAAAGGCTTTCCTATACAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
* * *
19653649 AGGCATTCCTTTTCATATATTGCCACAAAGGCTTCATTTACGGAGA
66 AGGCATTCCTTTTCAGATATAGCCACAAAGGCTTCATTTACAGAGA
* *
19653695 TTGCTACAAAGGCTTTCCTTTGACAGAG
1 TTGCCACAAAGGCTTTCCTAT-ACAGAG
19653723 ATCGCCACAA
Statistics
Matches: 120, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
111 115 0.96
112 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (111 bp):
TTGCCACAAAGGCTTTCCTATACAGAGTTGACACCAAGGCATCCTATCCTTAGGTTGCACCACGA
AGGCATTCCTTTTCAGATATAGCCACAAAGGCTTCATTTACAGAGA
Found at i:19653733 original size:29 final size:28
Alignment explanation
Indices: 19653543--19653805 Score: 112
Period size: 27 Copynumber: 9.5 Consensus size: 28
19653533 CACGAAGGTG
* * * *
19653543 TTCCTTTTCAGATATAGCCACGAAGGC-
1 TTCCTTTACAGAGATCGCCACAAAGGCT
* *
19653570 TTCCTTTACAGAGATTGCCACAAAGACT
1 TTCCTTTACAGAGATCGCCACAAAGGCT
* * * * *
19653598 TTCCTATCCAGAG-TTGACACCAAGGCAT
1 TTCCTTTACAGAGATCGCCACAAAGGC-T
* * * *
19653626 CCTCTCTTT--AG-GTTGCGCCACGAAGGCA
1 -TTC-CTTTACAGAGAT-CGCCACAAAGGCT
* * * *
19653654 TTCCTTTTCATATATTGCCACAAAGGC-
1 TTCCTTTACAGAGATCGCCACAAAGGCT
* * * *
19653681 TTCATTTACGGAGATTGCTACAAAGGCT
1 TTCCTTTACAGAGATCGCCACAAAGGCT
19653709 TTCCTTTGACAGAGATCGCCACAAAGGCT
1 TTCCTTT-ACAGAGATCGCCACAAAGGCT
* * * * *
19653738 GTCCTTTCACAGA-TTTGGCACAAAGGCA
1 TTCCTTT-ACAGAGATCGCCACAAAGGCT
* *
19653766 TT-CTTTA-ATAGGTTCGCCACAAAGGCT
1 TTCCTTTACAGA-GATCGCCACAAAGGCT
* *
19653793 TACCTTTTCAGAG
1 TTCCTTTACAGAG
19653806 TTTTTCCACA
Statistics
Matches: 175, Mismatches: 46, Indels: 29
0.70 0.18 0.12
Matches are distributed among these distances:
25 2 0.01
26 5 0.03
27 73 0.42
28 49 0.28
29 43 0.25
30 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (28 bp):
TTCCTTTACAGAGATCGCCACAAAGGCT
Found at i:19653752 original size:56 final size:54
Alignment explanation
Indices: 19653670--19653793 Score: 128
Period size: 56 Copynumber: 2.2 Consensus size: 54
19653660 TTCATATATT
* *
19653670 GCCACAAAGGCTTCATTTACGGAGA-TT-GCTACAAAGGCTTTCCTTTGACAGAGATC
1 GCCACAAAGGCTTCATTTAC-GAGATTTGGC-ACAAAGGCATT-CTTTAACAG-GATC
* * *
19653726 GCCACAAAGGCTGTCCTTTCAC-AGATTTGGCACAAAGGCATTCTTTAATAGGTTC
1 GCCACAAAGGCT-TCATTT-ACGAGATTTGGCACAAAGGCATTCTTTAACAGGATC
19653781 GCCACAAAGGCTT
1 GCCACAAAGGCTT
19653794 ACCTTTTCAG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
54 1 0.02
55 15 0.25
56 22 0.37
57 17 0.29
58 4 0.07
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (54 bp):
GCCACAAAGGCTTCATTTACGAGATTTGGCACAAAGGCATTCTTTAACAGGATC
Found at i:19653847 original size:29 final size:28
Alignment explanation
Indices: 19653668--19653850 Score: 124
Period size: 29 Copynumber: 6.5 Consensus size: 28
19653658 TTTTCATATA
* * *
19653668 TTGCCACAAAGGC-TTCATTT-ACGGAGA
1 TTGCCACAAAGGCTTTCCTTTAACAG-GT
* * *
19653695 TTGCTACAAAGGCTTTCCTTTGACAGAGA
1 TTGCCACAAAGGCTTTCCTTTAACAG-GT
* * * *
19653724 TCGCCACAAAGGCTGTCCTTTCACAGAT
1 TTGCCACAAAGGCTTTCCTTTAACAGGT
* * *
19653752 TTGGCACAAAGGCATT-CTTTAATAGGT
1 TTGCCACAAAGGCTTTCCTTTAACAGGT
* * *
19653779 TCGCCACAAAGGCTTACCTTT-TCAGAGTT
1 TTGCCACAAAGGCTTTCCTTTAACAG-G-T
* *
19653808 TTTCCAC-AAGGGTTGTCCTTTAACAGGT
1 TTGCCACAAAGGCTT-TCCTTTAACAGGT
19653836 TTGCCACAAAGGCTT
1 TTGCCACAAAGGCTT
19653851 ACCCTTCTAG
Statistics
Matches: 119, Mismatches: 29, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
27 34 0.29
28 36 0.30
29 46 0.39
30 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
TTGCCACAAAGGCTTTCCTTTAACAGGT
Found at i:19653897 original size:57 final size:57
Alignment explanation
Indices: 19653781--19653902 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 57
19653771 TAATAGGTTC
* * * * **
19653781 GCCACAAAGGCTTACCTTTTCAGAGTTTTTCCACAAGGGTTGTCCTTTAACAGGTTT
1 GCCACAAAGGCTTACCTTCTCAGAGTTTTTCCACAAAGGTCGTCCTTAAACAGAATT
* *
19653838 GCCACAAAGGCTTACCCTTCT-AGATTTTTTCCATAAAGG-CGTCCTTAAACAGAAATT
1 GCCACAAAGGCTTA-CCTTCTCAGAGTTTTTCCACAAAGGTCGTCCTTAAACAG-AATT
19653895 GCCACAAA
1 GCCACAAA
19653903 AAGGCTTTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
56 11 0.20
57 39 0.71
58 5 0.09
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (57 bp):
GCCACAAAGGCTTACCTTCTCAGAGTTTTTCCACAAAGGTCGTCCTTAAACAGAATT
Found at i:19654184 original size:53 final size:52
Alignment explanation
Indices: 19654029--19654185 Score: 189
Period size: 48 Copynumber: 3.1 Consensus size: 52
19654019 CTTTAAATTT
19654029 TTTCCATATGATG-CAATAACCCACCAGTTACAGTCTTACACGATATGGTCTTC
1 TTTCCATATGATGTC-ATAACCCA-CAGTTACAGTCTTACACGATATGGTCTTC
* * *
19654082 TTTCAATATGATGTCAT-A-CCA-A-TTACAGTCTTATATGATATGGTCTTC
1 TTTCCATATGATGTCATAACCCACAGTTACAGTCTTACACGATATGGTCTTC
* * * *
19654130 TTTCCTTATGATGTCATAACCCACTAGTTATAGTCTCACACGATATGGTTTTC
1 TTTCCATATGATGTCATAACCCAC-AGTTACAGTCTTACACGATATGGTCTTC
19654183 TTT
1 TTT
19654186 AGTGCCATGG
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
48 39 0.44
49 2 0.02
50 3 0.03
51 3 0.03
52 2 0.02
53 38 0.43
54 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (52 bp):
TTTCCATATGATGTCATAACCCACAGTTACAGTCTTACACGATATGGTCTTC
Found at i:19655778 original size:41 final size:41
Alignment explanation
Indices: 19655711--19655904 Score: 205
Period size: 41 Copynumber: 4.7 Consensus size: 41
19655701 TTTGGGGCCC
* * *
19655711 TTAGCGGCG-CTTTTACATAATCGCCGCTAATGCTGCGGTCT
1 TTAGCGGCGTTTTTTACA-AAGCGCCGCTAATGCTACGGTCT
* * * * *
19655752 TTCGCGGCGTTTTCTA-ATATGTGCCGCTAATTCT-CAGGTCT
1 TTAGCGGCGTTTTTTACA-AAGCGCCGCTAATGCTAC-GGTCT
* *
19655793 TTCGCGACGTTTTTTACAAAGCGCCGCTAATGCTACGGTCT
1 TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTACGGTCT
* * *
19655834 TTAGTGGCGTTTTTTACAAAGCGCCGCTAATGATACGTTCT
1 TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTACGGTCT
* *
19655875 TTAGCGGCGTTTCTTAAAAAGCGCCGCTAA
1 TTAGCGGCGTTTTTTACAAAGCGCCGCTAA
19655905 AAACCGCAGC
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.01
41 122 0.95
42 6 0.05
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTACGGTCT
Found at i:19657221 original size:74 final size:73
Alignment explanation
Indices: 19657061--19657292 Score: 410
Period size: 73 Copynumber: 3.2 Consensus size: 73
19657051 TTTACTGTAA
*
19657061 AAACGCCGCAAAAGTTTAACCAAAACGACTTCATTTTTATACTGTTTATTAGTATTAGCGGCGTT
1 AAACGCCGCAAAAGTTTAACCAAAACGACTTCATTTTTATACTGTTTATTGGTATTAGCGGCGTT
* *
19657126 TCTAGTAA
66 TCTGGTAC
19657134 AAACGCCGCAAAAGTTTAACCAAAACGACTTCATTTTGTATACTGTTTATTGGTATTAGCGGCGT
1 AAACGCCGCAAAAGTTTAACCAAAACGACTTCATTTT-TATACTGTTTATTGGTATTAGCGGCGT
19657199 TTCTGGTAC
65 TTCTGGTAC
* *
19657208 AAACGCCGTAAAAGTTTAACCAAAACGACTTCGTTTTTATACTGTTTATTGGTATTAGCGGCGTT
1 AAACGCCGCAAAAGTTTAACCAAAACGACTTCATTTTTATACTGTTTATTGGTATTAGCGGCGTT
19657273 TCTGGTAC
66 TCTGGTAC
19657281 AAACGCCGCAAA
1 AAACGCCGCAAA
19657293 TGATAGATAT
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
73 84 0.55
74 68 0.45
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (73 bp):
AAACGCCGCAAAAGTTTAACCAAAACGACTTCATTTTTATACTGTTTATTGGTATTAGCGGCGTT
TCTGGTAC
Found at i:19660864 original size:16 final size:15
Alignment explanation
Indices: 19660832--19661084 Score: 138
Period size: 16 Copynumber: 16.1 Consensus size: 15
19660822 ATACATAACT
19660832 TACATAACTTATTAA
1 TACATAACTTATTAA
*
19660847 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
19660863 TACATAACTTATATAA
1 TACATAACTTAT-TAA
19660879 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
*
19660897 TATATATA-TT-TTAA
1 TACATA-ACTTATTAA
19660911 -A-ATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
19660923 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
19660940 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
19660956 TACATAACTTATATAA
1 TACATAACTTAT-TAA
19660972 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
*
19660990 TATATATA-TT-TTAA
1 TACATA-ACTTATTAA
19661004 -A-ATGATAC--A-TAA
1 TACAT-A-ACTTATTAA
19661016 CTTACATAACTTATTAA
1 --TACATAACTTATTAA
*
19661033 TACATAACATTTTTAA
1 TACATAAC-TTATTAA
19661049 TACATAACTTATATAA
1 TACATAACTTAT-TAA
19661065 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
19661083 TA
1 TA
19661085 TATATATTTT
Statistics
Matches: 193, Mismatches: 8, Indels: 74
0.70 0.03 0.27
Matches are distributed among these distances:
12 10 0.05
13 8 0.04
14 12 0.06
15 50 0.26
16 62 0.32
17 6 0.03
18 12 0.06
19 33 0.17
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (15 bp):
TACATAACTTATTAA
Found at i:19660949 original size:93 final size:93
Alignment explanation
Indices: 19660792--19661150 Score: 679
Period size: 93 Copynumber: 3.9 Consensus size: 93
19660782 TACATACATT
19660792 ACATAACTTATTAATATATATA--TTAAAATGATACATAACTTACATAACTTATTAATACATAAC
1 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
19660855 ATTTTTAATACATAACTTATATAATACG
66 ATTTTTAATACATAACTTATATAATACG
19660883 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
1 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
19660948 ATTTTTAATACATAACTTATATAATACG
66 ATTTTTAATACATAACTTATATAATACG
19660976 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
1 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
19661041 ATTTTTAATACATAACTTATATAATACG
66 ATTTTTAATACATAACTTATATAATACG
*
19661069 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTATATAACTTATTAATACATAAC
1 ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
*
19661134 ATTTTTAACACA-AACTT
66 ATTTTTAATACATAACTT
19661151 TGCCATTTCC
Statistics
Matches: 264, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
91 22 0.08
92 5 0.02
93 237 0.90
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (93 bp):
ACATAACTTATTAATATATATATTTTAAAATGATACATAACTTACATAACTTATTAATACATAAC
ATTTTTAATACATAACTTATATAATACG
Found at i:19660984 original size:50 final size:50
Alignment explanation
Indices: 19660926--19661084 Score: 208
Period size: 50 Copynumber: 3.3 Consensus size: 50
19660916 TACATAACTT
19660926 ACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAATACG
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAATACG
* * * * *
19660976 ACATAACTTATTAATATAT-ATA-TTTTAA-A-ATGA--TACAT-A-ACTT
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAATAC-G
19661019 ACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAATACG
1 ACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAATACG
19661069 ACATAACTTATTAATA
1 ACATAACTTATTAATA
19661085 TATATATTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 19 0.21
44 6 0.07
45 6 0.07
46 4 0.04
47 4 0.04
48 6 0.07
49 6 0.07
50 35 0.39
51 2 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (50 bp):
ACATAACTTATTAATACATAACATTTTTAATACATAACTTATATAATACG
Found at i:19663048 original size:87 final size:87
Alignment explanation
Indices: 19662948--19663117 Score: 238
Period size: 87 Copynumber: 2.0 Consensus size: 87
19662938 CTTAAAGCGG
*
19662948 AGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAG-ATAAGAAGAACTCCAGCTA-CAACTTAAA
1 AGGCAACAACGAGAGAAGCTGAGGTTCAACAAAAGTAT-A-AAGAACTCCAGC-AGCAACTTAAA
*
19663010 GCAGATGCGTCAGCGAGAGAAATAA
63 GCAGATGCGGCAGCGAGAGAAATAA
* * *
19663035 AGGCAGCAACGAGAGAAGCTGAGGTTCAACGAAAGTATAAAGAACTCCAGCAGCAGCTTAAAGCA
1 AGGCAACAACGAGAGAAGCTGAGGTTCAACAAAAGTATAAAGAACTCCAGCAGCAACTTAAAGCA
*
19663100 GATGCGGCAGTGAGAGAA
66 GATGCGGCAGCGAGAGAA
19663118 GCAGAGGCTG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
86 1 0.01
87 66 0.89
88 5 0.07
89 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (87 bp):
AGGCAACAACGAGAGAAGCTGAGGTTCAACAAAAGTATAAAGAACTCCAGCAGCAACTTAAAGCA
GATGCGGCAGCGAGAGAAATAA
Found at i:19663130 original size:21 final size:21
Alignment explanation
Indices: 19663095--19663160 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
19663085 CAGCAGCTTA
* * * *
19663095 AAGCAGATGCGGCAGTGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
19663116 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
19663137 AAGTAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
19663158 AAG
1 AAG
19663161 GAGAACAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.32, C:0.15, G:0.45, T:0.08
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:19663514 original size:42 final size:42
Alignment explanation
Indices: 19663462--19663561 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 42
19663452 TCTGCCAAAA
*
19663462 TTAGTGGCGTTTTTCTAAAAGCGCCACTAAACACCATGAGCT
1 TTAGCGGCGTTTTTCTAAAAGCGCCACTAAACACCATGAGCT
** * * * * *
19663504 TTAGCGGCGTTTGTGGTGAAGGCGCCGCTAAAGACCATGGGCT
1 TTAGCGGCGTTT-TTCTAAAAGCGCCACTAAACACCATGAGCT
*
19663547 ATAGCGGCGTTTTTC
1 TTAGCGGCGTTTTTC
19663562 ACTGTAAGCG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGTTTTTCTAAAAGCGCCACTAAACACCATGAGCT
Found at i:19663535 original size:43 final size:43
Alignment explanation
Indices: 19663480--19663902 Score: 523
Period size: 43 Copynumber: 9.8 Consensus size: 43
19663470 GTTTTTCTAA
* * *
19663480 AAGCGCCACTAAACACCATGAG-CTTTAGCGGCGTTTG-T-GGT
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTGTTGGGT
* **
19663521 GAAGGCGCCGCTAAAGACCATGGGCTATAGCGGCGTTT-TTCACTGT
1 -AA-GCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTT--GGGT
** * * * * *
19663567 AAGCGCCGCTAAAGGTCATTGTCTTTCGCGGTGTTTATTGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
*
19663610 AAGCGCCGCTAAAAACCATGGTCTATAGCGGCGTTTGTTGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
19663653 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
* * *
19663696 AAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTAGTTGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
* *
19663739 AAGCGCCGCTAAAGACTATGGTCTATAGCGGCGTTTGTTTGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
* * *
19663782 ATA-AGCCGCTAAAGACCATGGTCTATAGCAGCGTTTGATGGGT
1 A-AGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
* *
19663825 AAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTGATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
* *
19663868 AAGCGCCACTAAAGACCATGGCCTATAGCGGCGTT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTT
19663903 GTAAAGAAAA
Statistics
Matches: 331, Mismatches: 41, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.01
43 293 0.89
44 28 0.08
45 4 0.01
46 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGGT
Found at i:19663961 original size:129 final size:130
Alignment explanation
Indices: 19663480--19663967 Score: 463
Period size: 129 Copynumber: 3.8 Consensus size: 130
19663470 GTTTTTCTAA
* * * * **
19663480 AAGCGCCACTAAACACCATGAG-CTTTAGCGGCGTTTG-TGGTGAAGGCGCCGCTAAAGACCATG
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTGTTAG-GAAAACGCCGCTAAAGACCATG
* * ** * * * * *
19663543 GGCTATAGCGGCGTTTTTCACT-GTAAGCGCCGCTAAAGGTCATTGTCTTTCGCGGTGTTTA-TT
64 GTCTATAGCGGCGTTTTTTA-TGGTAAGCGCCGCTAAAGACCATGGTCTATAGCGGCG-TTAGAT
19663606 GGGT
127 GGGT
* * * *
19663610 AAGCGCCGCTAAAAACCATGGTCTATAGCGGCGTTTGTTGGGTAAGCGCCGCTAAAGACCATGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTAGGAAAACGCCGCTAAAGACCATGGT
* * * * *
19663675 CTATAGCGGCGTTTGTT-GGGTAAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTAGTTGGAT
66 CTATAGCGGCGTTTTTTATGGTAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTAGATGGGT
* * *
19663739 AAGCGCCGCTAAAGACTATGGTCTATAGCGGCGTTTGTTTGGTATAA-GCCGCTAAAGACCATGG
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTAGG-AAAACGCCGCTAAAGACCATGG
* * * *
19663803 TCTATAGCAGCG--TTTGATGGGTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTGATGG
65 TCTATAGCGGCGTTTTTTAT-GGTAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTAGATGG
19663866 GT
129 GT
* * * * ** * *
19663868 AAGCGCCACTAAAGACCATGGCCTATAGCGGCG-TTGTAAAGAAAACGCCGCTAAAGGTCTTGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTAGGAAAACGCCGCTAAAGACCATGGT
* * ** *
19663932 CTTTAGGGGCGTTTTTTATAATAAACGCCGCTAAAG
66 CTATAGCGGCGTTTTTTATGGTAAGCGCCGCTAAAG
19663968 TTACCGACGC
Statistics
Matches: 298, Mismatches: 50, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
127 5 0.02
128 30 0.10
129 186 0.62
130 74 0.25
131 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (130 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTAGGAAAACGCCGCTAAAGACCATGGT
CTATAGCGGCGTTTTTTATGGTAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTAGATGGGT
Found at i:19665646 original size:51 final size:50
Alignment explanation
Indices: 19665586--19665770 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
19665576 TATGTTCACA
* * **
19665586 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACACG
* ** * * *
19665637 TAGTAGCCTGCACATAGTACTACACACATGATTGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTACACG
* * *
19665688 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTACACG
19665738 TAGTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
19665771 TAACAACTTC
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 42 0.39
51 65 0.60
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACACG
Found at i:19674164 original size:59 final size:59
Alignment explanation
Indices: 19674099--19674288 Score: 149
Period size: 59 Copynumber: 3.2 Consensus size: 59
19674089 ATTTTATAGT
*
19674099 ATTATATATTATGATTTTAGTACATATAAGAATATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATATAAGAATATATTTAATATTAAGAATTTTATTAA
* * ** * * * * * *
19674158 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATATAAGAAT-A-TAT-TTAATATTAAGAATTTTATTA-A
*
19674217 ATTATATATTATGATTTTAGTAATTTAATATTAAG-A-ATATCTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGT-A---AATA-TAAGAATATATTTAATATTAAGAATTTTATTAA
19674279 ATTATATATT
1 ATTATATATT
19674289 TTTATTAAAT
Statistics
Matches: 97, Mismatches: 21, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
58 2 0.02
59 50 0.52
60 9 0.09
61 8 0.08
62 20 0.21
63 5 0.05
64 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (59 bp):
ATTATATATTATGATTTTAGTAAATATAAGAATATATTTAATATTAAGAATTTTATTAA
Found at i:19674166 original size:31 final size:30
Alignment explanation
Indices: 19674130--19674289 Score: 84
Period size: 31 Copynumber: 5.3 Consensus size: 30
19674120 ACATATAAGA
19674130 ATATATTTAATATTAAGAATTTTATTAAATT
1 ATATATTTAATATT-AGAATTTTATTAAATT
* * * *
19674161 ATATATTT-TTATTA-AATTATATTTAATA
1 ATATATTTAATATTAGAATTTTATTAAATT
* *
19674189 ATAATTATGTTAA-ATTA-TATTTTA-TAGTATT
1 AT-A-TAT-TTAATATTAGAATTTTATTA-AATT
* * *
19674220 ATATATTATGATTTTAGTAATTTAATATT-AA-G
1 ATATATT-TAATATTAG-AATTT--TATTAAATT
*
19674252 A-ATATCTAATATTAAGAATTTTATTAAATT
1 ATATATTTAATATT-AGAATTTTATTAAATT
19674282 ATATATTT
1 ATATATTT
19674290 TTATTAAATT
Statistics
Matches: 93, Mismatches: 20, Indels: 32
0.64 0.14 0.22
Matches are distributed among these distances:
28 18 0.19
29 9 0.10
30 23 0.25
31 34 0.37
32 5 0.05
33 1 0.01
34 2 0.02
35 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (30 bp):
ATATATTTAATATTAGAATTTTATTAAATT
Done.